Sequence
atgc intronic sequence ATGC exonic sequence...gaggttcagtaaagcagctgaactaaattgatcgcatatgaagcccttttgtatttatgatatgaagtttgaaatttataacaatttgaaactttcacagATTGGTGATGTTGTTGTCCTTGATATATCAGCAACAACAATAGACCAAGATGAATCAAATGTTCAGAAAATTCCATCTGCAGAGAGTAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0090g01210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G02220.2 (Glycine max), 3'ss of exon 5
-gaggttcagtaaagcagctgaactaaattgat-cgcatatgaagcccttttgtatttatgatatgaagtttgaaatttataacaa-tttgaaactttcacagATTGGTGATGTTGTTGTCCTTGATATATCAGCAACAACAATAGACCAAGATGAATCAAATGTTCAGAAAATTCCATCTGCAGAGAGTAAAG
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ttggtatgtatttattatcttgat--aattgatatctgtattaataatttcgaccggtct-acccaaaattagccagctgctacaaattttttttgttcacagGTTGGAGATGTTGTTGTCCTTGACATCTCAGCAACAACCATTGATCAAGATGAATCAAATGTTAAAAGTATTCCTTCTGCTGAAAGTAAAG
upper sequence: Vv19s0090g01210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G02390.1 (Glycine max), 3'ss of exon 7
gaggttcagtaaagcagctgaactaaattgat-cgcatatgaagcccttttgtatttatgatatgaagtttgaaatttataacaatttgaaactt--tcacagATTGGTGATGTTGTTGTCCTTGATATATCAGCAACAACAATAGACCAAGATGAATCAAATGTTCAGAAAATTCCATCTGCAGAGAGTAAAG
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tggtatgtatttattatcttgat--aattgatatctgtattaataatttcgaccagtct-acccaaaattagccagctgctacaattttttttttgttcacagGTTGGAGATGTTGTTGTCCTTGACATCGCAGCAACAACCATTGATCAAGATGAATCAAATGTTAAAAGTATTCCTTCTGAAGAAA------
upper sequence: Vv19s0090g01210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G46430.1 (Glycine max), 3'ss of exon 5
--gaggttcagtaaagcagctgaactaaattgat-cgcatatgaagcccttttgtatttatgatatgaagtttgaaatttataacaatttgaaact-ttcacagATTGGTGATGTTGTTGTCCTTGATATATCAGCAACAACAATAGACCAAGATGAATCAAATGTTCAGAAAATTCCATCTGCAGAGAGTAAAG
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ttcagtatgtatttaatatcttgat--aattaatattcatattaa--taatttcgactagtctacccaaaatagccagctgctacaattttttactgttcacagGTTGGAGATGTTGCTGTCCTTGACATCTCAGCAACAACCATTGATCAAGATGAATCAAATGTTAAAAGTATTCCTTCTGCTGAAAGTAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttttgtatttatgatatgaagtttgaaatttataacaatttgaaactttcacagATTGGTGATGTTGTTGTCCTTGATATATCAGCAACAACAATAGACCAAGATGAATCAAATGTTCAGAAAATTCCATCTGCAGAGAGTAAAG
ttataac putative branch site (score: 2)
ctttcac putative PPT
tatttatgatatgaag 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaggttcagtaaagcagctgaactaaattgatcgcatatgaagcccttttgtatttatgatatgaagtttgaaatttataacaatttgaaactttcacagATTGGTGATGTTGTTGTCCTTGATATATCAGCAACAACAATAGACCAAGATGAATCAAATGTTCAGAAAATTCCATCTGCAGAGAGTAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - agcagct
- - - - - - - - - - aactaaa
- - - - - - - - - - - - - - - - -gcatatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataacaa