Sequence
atgc intronic sequence ATGC exonic sequencegtattttttttctcttcttttacatgattatatacttctttccttgtcaaccctacaagcacatttttacattgactagactcattccatttattagAGTTATTGCTGCCGTTCATGCGATATGCCATCAGAAGCACATGTTCATTGTTATACACATCGTCAAGGCAGCCTTACTATTTCTGTGAAGAAGCTTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g00360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G17510.1 (Glycine max), 3'ss of exon 5
gtattttttttctct---tcttttacatgattatatacttctttccttgtcaaccctacaagcacatttttacattg--actagactcattccatttattagAGTTATTGCTGCCGTTCATGCGATATGCCATCAGAAGCACATGTTCATTGTTATACACATCGTCAAGGCAGCCTTACTATTTCTGTGAAGAAGCTTCAAG
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gtatttgttcttccaaaattatttctttcattaaataaatttt-----atcaaca--atggctaccttatgacctcacaactgataatgtttc-tttattagAGTTACACTTGCTGCTCATGTGAGTTGCCATCAGAAGCTCATGTTCATTGTTATACTCATCAGCAAGGCAGCCTGACAATTTCCGTTAAGAAATCGGAGT
upper sequence: Vv11s0016g00360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA17G05000.1 (Glycine max), 3'ss of exon 8
gtattttttttctcttcttttacatgattatatacttctttccttgtcaaccctacaagcacatttttacattgactagactcattccatttattagAGTTATTGCTGCCGTTCATGCGATATGCCATCAGAAGCACATGTTCATTGTTATACACATCGTCAAGGCAGCCTTACTATTTCTGTGAAGAAGCTTCAAG
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gtatttgttcttccaaattatttctttcgttaaataaattttatcaacaatggttaccgtatgacctcaca---act-gatatgtttc-tttattagAGTTACACATGCTGCTCATGTGAGTTACCATCAGAAGCTCATGTTCATTGTTATACTCATCGGCAAGGCAGCCTGACAATTTGCGTTAAGAAATTGGAGT
upper sequence: Vv11s0016g00360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S65_215V6.1 (Physcomitrella patens), 3'ss of exon 10
--------------------------------------------------------------------------gtatttt------ttttctcttcttttacatgattatatacttctttccttgtcaaccc-tacaag----cacatttttacattgactag-----actcattccattt-------attagAGTTATTGCTGCCGTTCATGCGATATGCCATCAGAAGCACATGTTCATTGTTATACACATCGTCAAGGCAGCCTTACTATTTCTGTGAAGAAGCTTCAAG
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gtgcgtttgctaacttttactttatctgtactttccagttccggaatgcttctattttatggagctggttccaagtgtttcaaggacttttgttatttatctaaaagtaatacgatagttttattgcaaaaacgtacgagatagtacatgttcagtaaggctaatacatacatgtatcgtttgagtctcaacagACTAGCAGCTGTGGTTCTTGTGAGGAGCCGCTTGATTCGCATGTTCATTGTTATACACATCGCCAAGGGAGTTTGACTATTTCAGTTCAACGACTGAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttgtcaaccctacaagcacatttttacattgactagactcattccatttattagAGTTATTGCTGCCGTTCATGCGATATGCCATCAGAAGCACATGTTCATTGTTATACACATCGTCAAGGCAGCCTTACTATTTCTGTGAAGAAGCTTCAAG
cattgac putative branch site (score: 3)
ctcattcc putative PPT
atttttacatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattttttttctcttcttttacatgattatatacttctttccttgtcaaccctacaagcacatttttacattgactagactcattccatttattagAGTTATTGCTGCCGTTCATGCGATATGCCATCAGAAGCACATGTTCATTGTTATACACATCGTCAAGGCAGCCTTACTATTTCTGTGAAGAAGCTTCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC