Sequence
atgc intronic sequence ATGC exonic sequencegtaagagctaaaatttgtcttctacttgaattcaattgtgtcatttctttaatggaccttattaaatatttcccattatatccagGGACATACGCAACCATGATAACATGAAAAAAGAATGGACAGATGAGGAACTTAAGAAACTGTATGAAACCCATGAGAGGTTGCTAGATCTTGTTTCACTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: LOC_Os03g15900.2 (Oryza sativa), 3'ss of exon 16
gtaagagctaaaatttgtcttctacttgaattcaattgtgtcatttctttaatggaccttattaaatatttccc---attatatccagGGACATACGCAACCATGATAACATGAAAAAAGAATGGACAGATGAGGAACTTAAGAAACTGTATGAAACCCATGAGAGGTTGCTAGATCTTGTTTCACTG
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------------gtatgtcaccc-ccaagattccattggactgttg-tagatagtactgaactgactactttgtgtgatcatttgcagGGATATCCGTCAGCATGATAATAGTAAGCAAGAATGGAATGATGATGAACTTAAGAAACTTTATGAGACCCACGAGAGGCTTCTTGATTTCGTCTCTTTG
upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GRMZM2G012319_T02 (Zea mays), 3'ss of exon 17
-----gtaagagctaaaatttgtctt--ctacttgaattcaattgtgtcatttctttaatggaccttattaaatatttcccat-tatatccagGGACATACGCAACCATGATAACATGAAAAAAGAATGGACAGATGAGGAACTTAAGAAACTGTATGAAACCCATGAGAGGTTGCTAGATCTTGTTTCACTG
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gtatatttgacactaaaatccctcatggctgctcta--taaaatgtcttgacgtggcctcattttttgttctttttctctcttatttttgcagAGATATTCGCCAGCATGATAACAGCAAACAGGAATGGAGTGATGAGGAACTCAAGAAACTTTATGAAACCCATGAGAGGCTTCTTGATTTTGTTTCCTTA
upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA08G03020.1 (Glycine max), 3'ss of exon 18
gtaagagctaaaatttg-tcttctacttgaattcaattgtgtcatttctttaatggaccttattaaatatttcccattatatccagGGACATACGCAACCATGATAACATGAAAAAAGAATGGACAGATGAGGAACTTAAGAAACTGTATGAAACCCATGAGAGGTTGCTAGATCTTGTTTCACTG
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gtgagagccagatcctaattttgtgcttt--ttcaaatttg--atgatcttgattactaatgctcacgaactgc--ttatgaatagGGAAATACGCAATCATGACAATGCTAAGAAAGAATGGACTGATGATGAACTGAAGAAACTATATGAAACCCATGAAAGGCTGCTAGATCTTGTTTCATTG
upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA05G36530.1 (Glycine max), 3'ss of exon 18
gtaagagctaaaatttg-tcttctacttgaattcaattgtgtcatttct--ttaatggaccttattaaatatttcccattatatccagGGACATACGCAACCATGATAACATGAAAAAAGAATGGACAGATGAGGAACTTAAGAAACTGTATGAAACCCATGAGAGGTTGCTAGATCTTGTTTCACTG
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gtgagagccaaatcctaattttgtgctttttttcaaatttgatgatcttgattactaatgctcatgaactgctt------atgaatagGGAAATACGCAATCATGACAATGCTAAGAAAGAATGGACTGACGATGAACTGAAGAAACTATATGAAACCCATGAAAGGCTGCTAGACCTTGTTTCATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaattgtgtcatttctttaatggaccttattaaatatttcccattatatccagGGACATACGCAACCATGATAACATGAAAAAAGAATGGACAGATGAGGAACTTAAGAAACTGTATGAAACCCATGAGAGGTTGCTAGATCTTGTTTCACTG
ctttaat putative branch site (score: 4)
tttcccatt putative PPT
ttattaaatatttccc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagagctaaaatttgtcttctacttgaattcaattgtgtcatttctttaatggaccttattaaatatttcccattatatccagGGACATACGCAACCATGATAACATGAAAAAAGAATGGACAGATGAGGAACTTAAGAAACTGTATGAAACCCATGAGAGGTTGCTAGATCTTGTTTCACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG