Sequence
atgc intronic sequence ATGC exonic sequencegtaagtggtgtcttgattctattatcttagtttagtattctcaacagtagcattcttcataactttggtgcctttcacagGTACGAGGAGGCAAGGGAGGAGGAGAAGCAGCGTAGTCAGCGTGAGGATTTCAGTGACATGGTTGCAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G31550.1 (Glycine max), 3'ss of exon 16
gtaagtggtgtcttgatt-ctattatctta-----gtttagtattctcaacagta----gcatt--cttcataactttggtgccttt-cacagGTACGAGGAGGCAAGGGAGGAGGAGAAGCAGCGTAGTCAGCGTGAGGATTTCAGTGACATGGTTGCAGAG
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gtatgaatttttttattttctaattttttagagttggttagttgtgtaaggtttatgaggcagtggtttcttacctctattggatgagtacagGTACGAAGAAGCAAGGGAAGAAGAGAAGTTGCGTAGTCAGCGTGAAGATTTCAGTGACATGGTTGCAGAG
upper sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA15G07760.1 (Glycine max), 3'ss of exon 16
-------gtaagtggtgtcttgattctattatcttagtttagtattctcaac---agtagcatt--cttcataactttggtgccttt-cacagGTACGAGGAGGCAAGGGAGGAGGAGAAGCAGCGTAGTCAGCGTGAGGATTTCAGTGACATGGTTGCAGAG
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gtatggatttttttcttttctaattttttagagttggtttgttgtgtcaggtttatgaggcagtggtttcttacctctactgtatgaatacagGTACGAAGAAGCAAGGGAAGAAGAGAAGTTACGTAGCCAGCGAGAAGATTTCAGTGACATGGTTGCAGAG
upper sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G25110.1 (Glycine max), 3'ss of exon 16
--gtaagtggtgtcttga-----------ttctattatc--ttagtt-tagtattctcaacagtagcattcttcataactttggtgcctttcacagGTACGAGGAGGCAAGGGAGGAGGAGAAGCAGCGTAGTCAGCGTGAGGATTTCAGTGACATGGTTGCAGAG
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gtatgaattctttttttacaaaaaaaacgttctgttgcctgttagtgatgttaacatcatggctctgatttcttacctctcctggaactgttccagGTATGAAGAAGCAAGGGAGGAAGAGAAGTTACGAAATCAGCGTGAGGATTTCAGTGACATGGTGGCAGAG
upper sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G25110.2 (Glycine max), 3'ss of exon 17
----------------------------------------------------------------------gtaagtg---gtgtcttgattctattatcttagtttagtattctcaacagtagcattcttcataactttggtgcctttcacagGTACGAGGAGGCAAGGGAGGAGGAGAAGCAGCGTAGTCAGCGTGAGGATTTCAGTGACATGGTTGCAGAG---------------------------------------------------
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gttacgaaatcagcgtgaggatttcagtgacatggtggcagaggtgtgttacatttaattttcatatcttacaaactcacgcatgttgttgttgttattattaataacttcagtctttatttgtatatttaatcacgtaaccaactggtgcaga-atgagaagaggaagaagagAAAGATGCAAGAAAAGGAGGGCAAGTCCAAGAGGAATAAGGAGTTTAAGTTCTAAAGGTGGTTTCGTGTCTTTTTCTTTCGCAGAAAAAATGGGGGACCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttagtttagtattctcaacagtagcattcttcataactttggtgcctttcacagGTACGAGGAGGCAAGGGAGGAGGAGAAGCAGCGTAGTCAGCGTGAGGATTTCAGTGACATGGTTGCAGAG
tcataac putative branch site (score: 2)
tgcctttc putative PPT
tttagtatt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtggtgtcttgattctattatcttagtttagtattctcaacagtagcattcttcataactttggtgcctttcacagGTACGAGGAGGCAAGGGAGGAGGAGAAGCAGCGTAGTCAGCGTGAGGATTTCAGTGACATGGTTGCAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT