ID:

dan_2364

 Coordinate:

scaffold_13337:2287715-2287865 -

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-18.0 -18.0 -17.9

Flybase annnotation

exon [dana_GLEANR_9447:1]; CDS [Dana\GF24748-cds]; intron [Dana\GF24748-in]

No Repeatable elements found

mature
  1. scaffold_12613:313280-313298 +
  2. scaffold_12911:894130-894148 +
  3. scaffold_12929:790439-790457 +
  4. scaffold_13117:4828191-4828209 +
  5. dan_2364  scaffold_13337:2287807-2287825 -
  6. scaffold_13337:19286968-19286986 +
star

Sense Strand Reads

##################################################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
ATGCTGAGGCGCAGGCGCAGGGCGTGGCCCGGGAGGCTGAAGCTGAAGCTGTGAGGCTCTGCTGCCGGGGAATATGAATGTAAAATATATGCAAAAAAGAAAAAAAAAATCAAAAGAACATGCTTTCGTGCTTATTTCAAAGCGTAAAGAGCGTATACAGACTTCTGAATGAAAAGTCCAAAGTGAAAAAGTGAAATACTCGCACAACCTCCTGCGTGTAAGTTTTCAAGAGTTTTTTTTTTTTCAAAAGT
**************************************************....(((......)))..(((.......((((.......))))..........................(((((((..(((((......)))))...)))))))...(((....))).........)))......................************************************************** 		Read size # Mismatch Hit Count Total Norm Total M058
embryo
 V106
head
 V105
male body		 V055
head
 M044
female body
 V039
embryo
..................................................................................AAATATATGCTAAAAGGAAAAAA.................................................................................................................................................. 23 2 1 1.00 1 1 0 0 0 0 0
...............................GGAGGGTGAAGCTGATGC.......................................................................................................................................................................................................... 18 2 13 1.00 13 0 12 1 0 0 0
...CTGAGGCGCATGCTGAGGGC.................................................................................................................................................................................................................................... 20 3 6 0.83 5 0 0 4 0 1 0
...............................................................................................................................GTGCTTATTTGACAGCGT.......................................................................................................... 18 2 2 0.50 1 0 0 0 1 0 0
............................CAGGGAGGGTGAAGCTGATGC.......................................................................................................................................................................................................... 21 3 3 0.33 1 1 0 0 0 0 0
..............................GGGAGGGTGAAGCTGATGC.......................................................................................................................................................................................................... 19 2 3 0.33 1 0 1 0 0 0 0
.............................AGGGAGGGTGAAGCTGATGC.......................................................................................................................................................................................................... 20 3 10 0.30 3 1 2 0 0 0 0
.......................................................................................................................................................................................GGAAAAAGAGAAAGACTCGCAC.............................................. 22 3 4 0.25 1 1 0 0 0 0 0
..........................................................................................GCAACAAAGGAAAAAAAAATCA........................................................................................................................................... 22 2 5 0.20 1 0 0 0 0 0 1
............................CCGGGAGGCAGACGCTGA............................................................................................................................................................................................................. 18 2 5 0.20 1 0 0 0 1 0 0
...CTGAGGCGCATGCTCAGG...................................................................................................................................................................................................................................... 18 2 6 0.17 1 0 0 1 0 0 0
..........................................................................................GCAAAAAAGAAAAAAAAAA.............................................................................................................................................. 19 0 6 0.17 1 1 0 0 0 0 0
....TGAGGCGGAGGCGTAGGG..................................................................................................................................................................................................................................... 18 2 16 0.13 2 0 0 0 0 2 0
............................CAGGGAGGGTGAAGCTGATG........................................................................................................................................................................................................... 20 3 10 0.10 1 0 1 0 0 0 0
....................................................................................................AAAAAAAAATCAAAAGACC.................................................................................................................................... 19 1 11 0.09 1 1 0 0 0 0 0
.................................................................................................AGAAAAAAAAAACGAAAAGAACA................................................................................................................................... 23 2 13 0.08 1 1 0 0 0 0 0
....................................................................................................AAAAAAAAACCAAAAGAACA................................................................................................................................... 20 1 15 0.07 1 1 0 0 0 0 0
......................................................................................ATATGGGAAAAAGAAAAAAAAA............................................................................................................................................... 22 2 19 0.05 1 0 0 0 1 0 0

Anti-sense strand reads

TACGACTCCGCGTCCGCGTCCCGCACCGGGCCCTCCGACTTCGACTTCGACACTCCGAGACGACGGCCCCTTATACTTACATTTTATATACGTTTTTTCTTTTTTTTTTAGTTTTCTTGTACGAAAGCACGAATAAAGTTTCGCATTTCTCGCATATGTCTGAAGACTTACTTTTCAGGTTTCACTTTTTCACTTTATGAGCGTGTTGGAGGACGCACATTCAAAAGTTCTCAAAAAAAAAAAAGTTTTCA
**************************************************....(((......)))..(((.......((((.......))))..........................(((((((..(((((......)))))...)))))))...(((....))).........)))......................************************************************** 		Read size # Mismatch Hit Count Total Norm Total V106
head
 M058
embryo
 M044
female body
 V039
embryo
............................GTCCCTCCCACTTCGACTACG.......................................................................................................................................................................................................... 21 3 3 12.00 36 23 5 8 0
.............................TCCCTCCCACTTCGACTACG.......................................................................................................................................................................................................... 20 3 10 7.90 79 76 1 2 0
............................GTCCCTCCCACTTCGACTAC........................................................................................................................................................................................................... 20 3 10 2.40 24 8 5 8 3
..............................CCCTCCCACTTCGACTTC........................................................................................................................................................................................................... 18 1 1 1.00 1 0 1 0 0
.................................................................................................................................................................................TGTTTCACTTTTTCACTTTA...................................................... 20 1 1 1.00 1 0 1 0 0
..............................CCCTCCCACTTCGACTACG.......................................................................................................................................................................................................... 19 2 3 1.00 3 3 0 0 0
..............................CCCTCCCACTTCGACTACGC......................................................................................................................................................................................................... 20 3 18 0.44 8 5 2 1 0
............................................CTTGGACACTCAAAGACGACG.......................................................................................................................................................................................... 21 3 3 0.33 1 1 0 0 0
............................GTCCCTCCCACTTCGACT............................................................................................................................................................................................................. 18 2 3 0.33 1 0 1 0 0
............................GTCCCTCCCACTTCGACTCCG.......................................................................................................................................................................................................... 21 3 4 0.25 1 0 1 0 0
..............................................................................................................................................................................................................................AAAAGATCTCAAAAAAAAAAA........ 21 1 4 0.25 1 0 1 0 0
.............................TCCCTCCCACTTCGACTGCG.......................................................................................................................................................................................................... 20 3 7 0.14 1 1 0 0 0
..............................CCCTCCCACTTCGACTACGCC........................................................................................................................................................................................................ 21 3 8 0.13 1 0 1 0 0
.............................................................................................................AGTGATCTTGGACGAAAGC........................................................................................................................... 19 3 16 0.13 2 2 0 0 0
...........................CGTCCCTCCCACTTCGACT............................................................................................................................................................................................................. 19 3 20 0.10 2 0 2 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droAna3 scaffold_13337:2287665-2287915 - dan_2364 ATGCTGAGGCGCAGGCGCAGGGCGTGGCCCGGGAGGCTGAAGCTGAAGCTGTGAGGCTCTGCTGCCGGGGAATATGAATGTAAAATATATGCAAAAAAGAAAAAAAAAATCAAAAGAACATGCTTTCGTGCTTATTTCAAAGCGTAAAGAGC---------------GTATACAGACTTCTGAATGAAAAGTCCAAAGTGAAAAAGTGAAATACTCGCACAACCTCCTGCGTGTAAGTTTTCAAGAGTTTTTTTTTTTTCAAAAGT
droBip1 scf7180000396390:134220-134380 - CTGCTGAGGCGCAGGCGCAGGGCGTGGC------TGCTG-------------------------GCGG-GAGCATGAATGCGAGATGTATGCAAAAC--------------------TCATGCCTTCGT-----------AGCGTACTCGGCGGATACACACGGCCCATACACACAGTTCTGAATGAA--CCCGCAAGTGTAC--------------------------GGCGTGAGTTCGGAGGA--------------AGAGGG
droKik1 scf7180000302510:879347-879396 + GCTCGGAAGCGCAGGCGCAGGGCGTGGC------TGCTG-------------------------GGAA-AA-----------------------------------------------------------------------TAAA---------------------------------------------------------------------------------------------------G--------------GAAAAG
droTak1 scf7180000414364:19617-19640 + -----GAAGCGCAGGCGCAGGGCGTGGCC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
dp5 XR_group8:1406757-1406807 - -----GAGGCGCAGGCGCAGGGCGTGGTCCTGTCTGCTT-------------------------AGGA-AA-----------------------------------------------------------------------TTTA---------------------------------------------------------------------------------------------------A--------------AGTGTG
droPer2 scaffold_32:69380-69430 + -----GAGGCGCAGGCGCAGGGCGTGGTCCTGTCTGCTT-------------------------AGGA-AA-----------------------------------------------------------------------TTTA---------------------------------------------------------------------------------------------------A--------------AGTGTG

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droAna3
ATGCTGAGGCGCAGGCGCAGGGCGTGGCCCGGGAGGCTGAAGCTGAAGCTGTGAGGCTCTGCTGCCGGGGAATATGAATGTAAAATATATGCAAAAAAGAAAAAAAAAATCAAAAGAACATGCTTTCGTGCTTATTTCAAAGCGTAAAGAGC---------------GTATACAGACTTCTGAATGAAAAGTCCAAAGTGAAAAAGTGAAATACTCGCACAACCTCCTGCGTGTAAGTTTTCAAGAGTTTTTTTTTTTTCAAAAGTSizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
..........................................................................................GCAAAAAAGAAAAAAAAAA.............................................................................................................................................................1960.171010000
droBip1
CTGCTGAGGCGCAGGCGCAGGGCGTGGC------TGCTG-------------------------GCGG-GAGCATGAATGCGAGATGTATGCAAAAC--------------------TCATGCCTTCGT-----------AGCGTACTCGGCGGATACACACGGCCCATACACACAGTTCTGAATGAA--CCCGCAAGTGTAC--------------------------GGCGTGAGTTCGGAGGA--------------AGAGGGSizeHit CountTotal NormTotal
No Reads
droKik1
GCTCGGAAGCGCAGGCGCAGGGCGTGGC------TGCTG-------------------------GGAA-AA-----------------------------------------------------------------------TAAA---------------------------------------------------------------------------------------------------G--------------GAAAAGSizeHit CountTotal NormTotal
No Reads
droTak1
-----GAAGCGCAGGCGCAGGGCGTGGCC---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
dp5
-----GAGGCGCAGGCGCAGGGCGTGGTCCTGTCTGCTT-------------------------AGGA-AA-----------------------------------------------------------------------TTTA---------------------------------------------------------------------------------------------------A--------------AGTGTGSizeHit 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
-----GAGGCGCAGGCGCAGGGCGTGGTCCTGTCTGCTT-------------------------AGGA-AA-----------------------------------------------------------------------TTTA---------------------------------------------------------------------------------------------------A--------------AGTGTGSizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
No Reads

Generated: 05/18/2015 at 04:27 AM