ID:

dan_1327

 Coordinate:

scaffold_13117:2983519-2983564 -

 Confidence:

Candidate

 Type:

Unknown

 [View on UCSC Genome Browser {Cornell Mirror}]
Legend: mature star mismatch in alignment mismatch in read

Predicted structure

Flybase annnotation

intron [Dana\GF20929-in]; exon [dana_GLEANR_4169:2]; exon [dana_GLEANR_4169:1]; CDS [Dana\GF20929-cds]; CDS [Dana\GF20929-cds]

No Repeatable elements found

Sense Strand Reads

##################################################----------------------------------------------##################################################
CTGCCACCATCACAAACATGATACCATCTACCGCAGACGTCCCAGGTCAAGTAAGTGTCTCTTAAACCATTCTAAGGAATGGTTTTAACCTTTCAGTTTTTAGTGGAGGTGCCGCAAGAAGCTCAGCCAGTCTTGCCAACCACTAC
**************************************************..(((.((.....(((((((((....)))))))))..)))))....************************************************** 		Read size # Mismatch Hit Count Total Norm Total V055
head
 M058
embryo
 V105
male body		 V039
embryo
 M044
female body
....CACCAACACATATATGATACCATC...................................................................................................................... 24 3 1 1.00 1 0 1 0 0 0
..................TGATACCATCTACCGCAGACGTCCCA...................................................................................................... 26 0 1 1.00 1 0 0 1 0 0
............................TAGGGCAAACGTCCCAGGTC.................................................................................................. 20 3 1 1.00 1 1 0 0 0 0
..........................TATAACGCAGACGTCCGAGG.................................................................................................... 20 3 9 0.11 1 1 0 0 0 0
.........TAACAGACATGATACCTTCT..................................................................................................................... 20 3 10 0.10 1 0 0 0 1 0
..............................................GCAAGTATGGGTCTCTTAAA................................................................................ 20 3 16 0.06 1 0 0 0 0 1
.......................................................TGTTTCTTAAACCACTCTAC....................................................................... 20 3 20 0.05 1 0 1 0 0 0
..............................................................................................................................TCAGTATTGCTAACCACTA. 19 3 20 0.05 1 0 0 0 1 0

Anti-sense strand reads

GACGGTGGTAGTGTTTGTACTATGGTAGATGGCGTCTGCAGGGTCCAGTTCATTCACAGAGAATTTGGTAAGATTCCTTACCAAAATTGGAAAGTCAAAAATCACCTCCACGGCGTTCTTCGAGTCGGTCAGAACGGTTGGTGATG
**************************************************..(((.((.....(((((((((....)))))))))..)))))....************************************************** 		Read size # Mismatch Hit Count Total Norm Total M058
embryo
 V106
head
 V055
head
 M044
female body
 V039
embryo
....................................................ACCACAGAGAATTTGGTAA........................................................................... 19 2 2 0.50 1 1 0 0 0 0
.................TACTATGGTAAATGGCGTACG............................................................................................................ 21 3 3 0.33 1 1 0 0 0 0
.................TACAATGGTAAATGGCGT............................................................................................................... 18 2 8 0.25 2 0 0 0 2 0
.......................................................ACAAAGAATTTGGTGAGA......................................................................... 18 2 10 0.20 2 0 2 0 0 0
......................................................AACAGAGAATTTGGTGAGA......................................................................... 19 2 7 0.14 1 0 1 0 0 0
.............................................................................................................................CGGTCAGAACGGGAGGTTA.. 19 3 20 0.10 2 1 0 1 0 0
.....................................................TCACAAAGAATTTGGAGAGA......................................................................... 20 3 19 0.05 1 0 0 1 0 0
..................................................................................AGAATTGGACAGTCATAAA............................................. 19 3 20 0.05 1 0 0 1 0 0
........................................................CAAAGAATTTGGTGAGA......................................................................... 17 2 20 0.05 1 0 0 1 0 0
.................................................................................CAAAAGTGGAAAGACAAAAA............................................. 20 2 20 0.05 1 0 0 0 0 1
.............................................................................................................................AGGTCAGAACGGGTGGT.... 17 2 20 0.05 1 0 0 1 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droAna3 scaffold_13117:2983469-2983614 - dan_1327 CTGCCACCATCACAAACATGATACCATCTACCGCAGACGTCCCAGGTCAAGTAAGTGTCTCTTAAACCATTCTAAGGAATGGTTTTAACCTTTCAGTTTTTAGTGGAGGTGCCGCAAGAAGCTCAGCCAGTCTTGCCAAC--CACTAC
droFic1 scf7180000453882:1131902-1131905 + CC------------------------------------------------------------------------------------------------------------------------------------------------AC
droEle1 scf7180000491268:461028-461043 - GTCT---------------------------------------------------------------------------------------------------------------------------------TGGCATC--C-ACAT
droRho1 scf7180000771936:3751-3803 + CCGT----------------------------------------------------------------------------------------TCTGTTCCTGGAGGAAACGTGGCAAGACG-----CCATCGATGCCATG--ACCAAT
droYak3 3L:17675928-17675929 - A--------------------------------------------------------------------------------------------------------------------------------------------------C
droEre2 scaffold_4845:6148399-6148408 + CAACTA------------------------------------------------------------------------------------------------------------------------------------------CCGC
dp5 XL_group1a:7547436-7547462 + CTCA-------------------------------------------------------------------------------------------------------------------------ACCAATCTTTACAAATTGAACAC
droPer2 scaffold_2:2858842-2858847 + CGC----------------------------------------------------------------------------------------------------------------------------------------------CAC

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droAna3
CTGCCACCATCACAAACATGATACCATCTACCGCAGACGTCCCAGGTCAAGTAAGTGTCTCTTAAACCATTCTAAGGAATGGTTTTAACCTTTCAGTTTTTAGTGGAGGTGCCGCAAGAAGCTCAGCCAGTCTTGCCAAC--CACTACSizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
..................TGATACCATCTACCGCAGACGTCCCA........................................................................................................2611.001000010
droFic1
CC------------------------------------------------------------------------------------------------------------------------------------------------ACSizeHit CountTotal NormTotal
No Reads
droEle1
GTCT---------------------------------------------------------------------------------------------------------------------------------TGGCATC--C-ACATSizeHit CountTotal NormTotal
No Reads
droRho1
CCGT----------------------------------------------------------------------------------------TCTGTTCCTGGAGGAAACGTGGCAAGACG-----CCATCGATGCCATG--ACCAATSizeHit CountTotal NormTotal
No Reads
droYak3
A--------------------------------------------------------------------------------------------------------------------------------------------------CSizeHit CountTotal NormTotalM026
Head		M043
Female-body		M056
Embryo		V046
Embryo		V052
Head		V058
Head		V120
Male-body		SRR1275488
Male larvae		SRR1275486
Male prepupae		SRR1275484
Male prepupae		GSM1528802
follicle cells
No Reads
droEre2
CAACTA------------------------------------------------------------------------------------------------------------------------------------------CCGCSizeHit CountTotal NormTotalM055
Female-body		M057
Embryo		V060
Head		V040
Embryo		V107
Male-body		V108
Head		GSM1528801
follicle cells
No Reads
dp5
CTCA-------------------------------------------------------------------------------------------------------------------------ACCAATCTTTACAAATTGAACACSizeHit CountTotal NormTotalM022
Male-body		M040
Female-body		M059
Embryo		M062
Head		V043
Embryo		V051
Head		V112
Male-body		SRR902010
Ovary		SRR902011
Testis		SRR902012
CNS imaginal disc
No Reads
droPer2
CGC----------------------------------------------------------------------------------------------------------------------------------------------CACSizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
No Reads

Generated: 05/18/2015 at 01:17 AM