ID: uc010xlk.2
GENE: LDLR(3)
chr19:11215696-11215945+


(1)
AGO1.ip
(1)
AGO1.ip OTHER.mut
(2)
AGO2.ip
(2)
B-CELL
(2)
BRAIN
(4)
BREAST
(23)
CELL-LINE
(1)
CERVIX
(1)
HEART
(2)
HELA
(3)
LIVER
(2)
OTHER
(1)
RRP40.ip
(4)
SKIN
(1)
XRN.ip

Sense strand
AGCAGTGCTGGGAAATGTGTACAGATGAGGAAACTGAGGCACCGAGAGGGCAGTGGTTCAGAGTCCATGGCCCCTGACTGCTCCCCAGCCCGCCTTTCCAGGGGCCTGGCCTCACTGCGGCAGCGTCCCCGGCTATAGAATGGGCTGGTGTTGGGAGACTTCACACGGTGATGGTGGTCTCGGCCCATCCATCCCTGCAGCCCCCAAGACGTGCTCCCAGGACGAGTTTCGCTGCCACGATGGGAAGTGC
.............................................................................................................................................(((.(((...((((.((..((((.((....))))))..))..)))).))).))).......................................................
.....................................................................................................................................134...............................................................200................................................
SizePerfect hitTotal NormPerfect NormSRR207113(GSM721075)
IP against AGO 1 & 2. (ago1/2 cell line)
SRR207114(GSM721076)
"IP against AGO 1 & 2, RRP40 knockdown". (ago1/2 RRP40 cell line)
SRR037940(GSM510478)
293cand5_rep2. (cell line)
RoviraIPAgo2(Rovira)
total RNA. (ago2 breast)
SRR189784SRR038858(GSM458541)
MEL202. (cell line)
SRR189779(GSM714639)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)
DRR001489(DRX001043)
"Hela short nuclear cell fraction, control". (hela)
SRR039623(GSM531986)
HCV(+) HCC Tissue Sample. (liver)
DRR001488(DRX001042)
"Hela short nuclear cell fraction, LNA(+)". (hela)
SRR039620(GSM531983)
HBV(+) Adjacent Tissue Sample 2. (liver)
SRR033722(GSM497067)
KMS12 cell line (KMS12). (B cell)
SRR039192(GSM494811)
K562 cell line is derived from a CML patient . (cell line)
SRR387910(GSM843862)
antibody for ip: Ago2. (ago2 cell line)
SRR038861(GSM458544)
MM466. (cell line)
SRR060168(GSM565978)
5-8F_nucleus. (cell line)
SRR037939(GSM510477)
293cand5_rep1. (cell line)
SRR033714(GSM497059)
Burkitt Lymphoma (BL134). (B cell)
SRR326279(GSM769509)
cytoplasmic fraction was isolated using PARIS. (cell line)
GSM359202(GSM359202)
hepg2_untreated_a. (cell line)
SRR330906(SRX091744)
tissue: normal skindisease state: normal. (skin)
DRR000557(DRX000315)
"THP-1 whole cell RNA, after 3 day treatment . (cell line)
SRR207112(GSM721074)
RRP40 knockdown. (RRP40 cell line)
GSM450609(GSM450609)
miRNA sequencing raw reads from post-mortem s. (brain)
SRR189782SRR037937(GSM510475)
293cand2. (cell line)
SRR330911(SRX091749)
tissue: normal skindisease state: normal. (skin)
SRR330909(SRX091747)
tissue: normal skindisease state: normal. (skin)
SRR040007(GSM532892)
G601T. (cervix)
SRR038854(GSM458537)
MM653. (cell line)
SRR191559(GSM715669)
65genomic small RNA (size selected RNA from t. (breast)
SRR039193(GSM494812)
HL60 cell line is derived from acute promyelo. (cell line)
SRR037941(GSM510479)
293DroshaTN. (cell line)
SRR207115(GSM721077)
XRN1&2 knockdown. (XRN1/XRN2 cell line)
SRR342900(SRX096796)
small RNA seq of Right atrial tissue. (heart)
SRR107296(GSM677703)
18-30nt fraction of small RNA. (cell line)
SRR039622(GSM531985)
HCV(+) Adjacent Tissue Sample. (liver)
SRR191591(GSM715701)
53genomic small RNA (size selected RNA from t. (breast)
GSM450605(GSM450605)
miRNA sequencing raw reads from post-mortem s. (brain)
SRR038862(GSM458545)
MM472. (cell line)
SRR326280(GSM769510)
total cell content of unperturbed cells was s. (cell line)
SRR330876(SRX091714)
tissue: skin psoriatic involveddisease state:. (skin)
SRR038852(GSM458535)
QF1160MB. (cell line)
SRR191551(GSM715661)
32genomic small RNA (size selected RNA from t. (breast)
..........................................................................................................................................AATGGGCTGGTGTTGGGAGACT..........................................................................................22113.0013.00-5.00---------2.00-----2.001.00------------1.00-------1.00--1.00-
.................................................................................................................................................................................TCTCGGCCCATCCATCCCTGC....................................................2118.008.00--6.00-------------2.00---------------------------
..........................................................................................................................................AATGGGCTGGTGTTGGGAGACTT.........................................................................................2317.007.007.00-------------------------------------------
..........................................................................................................................................AATGGGCTGGTGTTGGGAGACTTC........................................................................................2416.006.00---1.00-1.00-------2.00-------1.00-1.00--------------------
..........................................................................................................................................AATGGGCTGGTGTTGGGAGAC...........................................................................................2114.004.00-2.00---------------------------1.001.00-------------
..........................................................................................................................................AATGGGCTGGTGTTGGGAGACTTTAA......................................................................................2612.007.00---------------1.00-------------------1.00--------
..................................................................................................................................................GGTGTTGGGAGACTTCACACGG..................................................................................2212.002.00---------2.00----------------------------------
........................................................................................................................................................................................CCATCCATCCCTGCAATAC...............................................192.000.00----2.00---------------------------------------
..........................................................................................................................................AATGGGCTGGTGTTGGGAGACTAA........................................................................................2412.0013.00-----2.00--------------------------------------
............................................................................................................................................................................................................CAAGACGTGCTCCCAGGACGAGTTT.....................2511.001.00--------1.00-----------------------------------
...............................................................................................................................CCCGGCTATAGAATGGGC.........................................................................................................1811.001.00-------1.00------------------------------------
.........................................................................................................................................GAATGGGCTGGTGTTGGGAGACTTC........................................................................................2511.001.00--------1.00-----------------------------------
...........................................................AGAGTCCATGGCCCCTGACT...........................................................................................................................................................................2011.001.00------------------------------------1.00-------
.................................................................................................................................................................................TCTCGGCCCATCCATCCCTGCAG..................................................2311.001.00-----------------------------------------1.00--
............................................................................................................................GTCCCCGGCTATAGAATGGG..........................................................................................................2011.001.00-------1.00------------------------------------
..........................GAGGAAACTGAGGCACCGAGAGGGC.......................................................................................................................................................................................................2511.001.00------------1.00-------------------------------
..........GGAAATGTGTACAGATGAGGAAACTGAG....................................................................................................................................................................................................................2811.001.00---------------1.00----------------------------
................................................................................................................................CCGGCTATAGAATGGG..........................................................................................................1611.001.00-------1.00------------------------------------
...........................................................................................................................................ATGGGCTGGTGTTGGGAGACTTC........................................................................................2311.001.00--------------1.00-----------------------------
.........................................................................CTGACTGCTCCCCAGCCAA..............................................................................................................................................................191.000.00--------------------------------1.00-----------
.................................................................................................................................................................................................................................GTTTCGCTGCCACGATGGGAAGT..2311.001.00--------------------------1.00-----------------
........................................................................................................................................................................................CCATCCATCCCTGCAATAT...............................................191.000.00----1.00---------------------------------------
...........................................................AGAGTCCATGGCCCCTGACA...........................................................................................................................................................................201.000.00----------1.00---------------------------------
.............................................................................................................................................................................................................AAGACGTGCTCCCAGGACGAA........................211.000.00--------1.00-----------------------------------
........................ATGAGGAAACTGAGGCACCGAGAGGTT.......................................................................................................................................................................................................271.000.00------1.00-------------------------------------
.....TGCTGGGAAATGTGTACAGATGAGGAAA.........................................................................................................................................................................................................................2811.001.00-------------------1.00------------------------
......................................................................................................................................................................................................AGCCCCCAAGACGTGCTCCCAG..............................2211.001.00----------1.00---------------------------------
.....................................................................................................................................TATAGAATGGGCTGGTGTTG.................................................................................................2011.001.00--------------------------------------1.00-----
.................................................................................................................................................................................................................................GTTTCGCTGCCACGATGGGAAG...2211.001.00--------------------1.00-----------------------
.........................TGAGGAAACTGAGGCACCGAGAGGGCC......................................................................................................................................................................................................271.000.00------1.00-------------------------------------
..........................................CGAGAGGGCAGTGGTTCAGAG...........................................................................................................................................................................................2111.001.00-------------------------------------1.00------
..........................................................................................................................................AATGGGCTGGTGTTGGGAGACA..........................................................................................2211.004.001.00-------------------------------------------
.........................................................................................................................................................................................................CCCCAAGACGTGCTCCCAGGACGAGTTT.....................2811.001.00------------1.00-------------------------------
..........................................................................................................................................AATGGGCTGGTGTTGGGAG.............................................................................................1911.001.00----------------------1.00---------------------
................GTGTACAGATGAGGAAACTGAGGC..................................................................................................................................................................................................................2431.001.00---------------------------------1.00----------
..........................................................................................................................................AATGGGCTGGTGTTGGGAGACTTA........................................................................................2411.007.00--------------1.00-----------------------------
..........................GAGGAAACTGAGGCACCGAGAG..........................................................................................................................................................................................................2230.670.67----------0.67---------------------------------
.........................................................................CTGACTGCTCCCCAGC.................................................................................................................................................................1660.330.33---------0.33----------------------------------
........................................................................CCTGACTGCTCCCCAGC.................................................................................................................................................................1730.330.33---------0.33----------------------------------
..........................GAGGAAACTGAGGCACCGAGA...........................................................................................................................................................................................................2180.120.12-------------------------------------------0.12

Antisense strand
AGCAGTGCTGGGAAATGTGTACAGATGAGGAAACTGAGGCACCGAGAGGGCAGTGGTTCAGAGTCCATGGCCCCTGACTGCTCCCCAGCCCGCCTTTCCAGGGGCCTGGCCTCACTGCGGCAGCGTCCCCGGCTATAGAATGGGCTGGTGTTGGGAGACTTCACACGGTGATGGTGGTCTCGGCCCATCCATCCCTGCAGCCCCCAAGACGTGCTCCCAGGACGAGTTTCGCTGCCACGATGGGAAGTGC
.............................................................................................................................................(((.(((...((((.((..((((.((....))))))..))..)))).))).))).......................................................
.....................................................................................................................................134...............................................................200................................................
SizePerfect hitTotal NormPerfect NormSRR207113(GSM721075)
IP against AGO 1 & 2. (ago1/2 cell line)
SRR207114(GSM721076)
"IP against AGO 1 & 2, RRP40 knockdown". (ago1/2 RRP40 cell line)
SRR037940(GSM510478)
293cand5_rep2. (cell line)
RoviraIPAgo2(Rovira)
total RNA. (ago2 breast)
SRR189784SRR038858(GSM458541)
MEL202. (cell line)
SRR189779(GSM714639)
cell line: HEK293clip variant: PAR-CLIPenzyma. (cell line)
DRR001489(DRX001043)
"Hela short nuclear cell fraction, control". (hela)
SRR039623(GSM531986)
HCV(+) HCC Tissue Sample. (liver)
DRR001488(DRX001042)
"Hela short nuclear cell fraction, LNA(+)". (hela)
SRR039620(GSM531983)
HBV(+) Adjacent Tissue Sample 2. (liver)
SRR033722(GSM497067)
KMS12 cell line (KMS12). (B cell)
SRR039192(GSM494811)
K562 cell line is derived from a CML patient . (cell line)
SRR387910(GSM843862)
antibody for ip: Ago2. (ago2 cell line)
SRR038861(GSM458544)
MM466. (cell line)
SRR060168(GSM565978)
5-8F_nucleus. (cell line)
SRR037939(GSM510477)
293cand5_rep1. (cell line)
SRR033714(GSM497059)
Burkitt Lymphoma (BL134). (B cell)
SRR326279(GSM769509)
cytoplasmic fraction was isolated using PARIS. (cell line)
GSM359202(GSM359202)
hepg2_untreated_a. (cell line)
SRR330906(SRX091744)
tissue: normal skindisease state: normal. (skin)
DRR000557(DRX000315)
"THP-1 whole cell RNA, after 3 day treatment . (cell line)
SRR207112(GSM721074)
RRP40 knockdown. (RRP40 cell line)
GSM450609(GSM450609)
miRNA sequencing raw reads from post-mortem s. (brain)
SRR189782SRR037937(GSM510475)
293cand2. (cell line)
SRR330911(SRX091749)
tissue: normal skindisease state: normal. (skin)
SRR330909(SRX091747)
tissue: normal skindisease state: normal. (skin)
SRR040007(GSM532892)
G601T. (cervix)
SRR038854(GSM458537)
MM653. (cell line)
SRR191559(GSM715669)
65genomic small RNA (size selected RNA from t. (breast)
SRR039193(GSM494812)
HL60 cell line is derived from acute promyelo. (cell line)
SRR037941(GSM510479)
293DroshaTN. (cell line)
SRR207115(GSM721077)
XRN1&2 knockdown. (XRN1/XRN2 cell line)
SRR342900(SRX096796)
small RNA seq of Right atrial tissue. (heart)
SRR107296(GSM677703)
18-30nt fraction of small RNA. (cell line)
SRR039622(GSM531985)
HCV(+) Adjacent Tissue Sample. (liver)
SRR191591(GSM715701)
53genomic small RNA (size selected RNA from t. (breast)
GSM450605(GSM450605)
miRNA sequencing raw reads from post-mortem s. (brain)
SRR038862(GSM458545)
MM472. (cell line)
SRR326280(GSM769510)
total cell content of unperturbed cells was s. (cell line)
SRR330876(SRX091714)
tissue: skin psoriatic involveddisease state:. (skin)
SRR038852(GSM458535)
QF1160MB. (cell line)
SRR191551(GSM715661)
32genomic small RNA (size selected RNA from t. (breast)
.......................................................GTTCAGAGTCCATGGTCTG................................................................................................................................................................................ 194.000.00---2.00-----------------------1.00------------1.00---
.........................................................................................................................................................................................................CCCCAAGACGTGCTCCCACAC............................ 211.000.00----------------------------1.00---------------
.......................................................GTTCAGAGTCCATGGCTCTG............................................................................................................................................................................... 201.000.00----------------------------------1.00---------
............................................................................................................................................................................................................CAAGACGTGCTCCCATA............................. 171.000.00------------------------1.00-------------------
.................TGTACAGATGAGGAAACTGAGGCAG................................................................................................................................................................................................................ 251.000.00------1.00-------------------------------------
...........................................................................................................................................................................................................CCAAGACGTGCTCCCAAA............................. 181.000.00-------------------------1.00------------------
.................................................................................AAAGGCGGGCTGGGGA......................................................................................................................................................... 1620.500.50------------------0.50-------------------------