Sequence
atgc intronic sequence ATGC exonic sequence...actctttaaatatttggtcatggaatctagaaagccccatattgtgtttgtaaacattttgagtttcttgattacagtttgtttgcacataattttctagGGTATGAGCCAGCTTGAACTGGAAGATGAGGTGCAAGATGATCTCAAATGTGCTACTGGAGGGTTCACAAAGGATGGAGATGATGTAAATAAACTTAATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0018g02080.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G378906_T01 (Zea mays), 3'ss of exon 1
actctttaaatat-ttggtcatggaatctagaaagccccatattgtgtt-tgtaaacattttgagtttct-tgattacagtttgtttgcacataattttctagGGTATGAGCCAGCTTGAACTGGAAGATGAGGTGCAAGATGATCTCAAATGTGCTACTGGAGGGTTCACAAAGGATGGAGATGATGTAAATAAACTTAATC
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-ctggtgttgtgtattgggcttggatgataccttgccacttttagtgtggccttcacatctgtaccttcagttattaaagcatgctattttgttatcat--agGGCATGAGCCAGCTTGAGTTGGAAGATGAGGTGCACGATGATTTGAAGGCTGCAACTGGTGGGTTTACTAAGGATGCAGATGATGCAAACAAGCTCAACC
upper sequence: Vv09s0018g02080.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G011101_T01 (Zea mays), 3'ss of exon 1
actctttaaatatttggtcatggaatctagaaagccccatattgtgtt-tgtaaacattttgagtttct-tgattacagtttgtttgcacataattttctagGGTATGAGCCAGCTTGAACTGGAAGATGAGGTGCAAGATGATCTCAAATGTGCTACTGGAGGGTTCACAAAGGATGGAGATGATGTAAATAAACTTAATC
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-gtctggtgttgtcttggtttgcacgacaccttgccacttctagtgtggctttcacatttgctctttcagttattaaagcatgct-atttttgttgtcatagGGCATGAGCCAGCTTGAGTTGGAAGATGAGGTGCATGATGATTTGAAGGCTGCAACTGGTGGGTTTACCAAGGATGCAGATGACGCAAACAAGCTCAACC
upper sequence: Vv09s0018g02080.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G00610.1 (Glycine max), 3'ss of exon 1
----actctttaaatatttggtcatggaatctagaaagccccatattgtgtttgtaaacattttgagtttcttgattacagtttgtttgcacataattttctagGGTATGAGCCAGCTTGAACTGGAAGATGAGGTGCAAGATGATCTCAAATGTGCTACTGGAGGGTTCACAAAGGATGGAGATGATGTAAATAAACTTAATC
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tataaattttgtaacaatcag-catctgtttaagtacactagctcttctg---gtgtttcttctaatggtcaatatgtggattcttttcttctgaattcttcagGGTATGAGCCAACTTGAGCTGGAAGATGAGGTTCAAGACGATCTCAAACGTGCTACTGGGGAGTTTACAAAGGATGCAGATGATGCAAATAAGCTCAATC
upper sequence: Vv09s0018g02080.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G23780.1 (Glycine max), 3'ss of exon 1
----actctttaaatatttggtcatggaatctagaaagccccatattgtgtttgtaaacattttgagtttcttgattacagtttgtttgcacataattttctagGGTATGAGCCAGCTTGAACTGGAAGATGAGGTGCAAGATGATCTCAAATGTGCTACTGGAGGGTTCACAAAGGATGGAGATGATGTAAATAAACTTAATC
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tataaattttgtaacggtcaat-atctgtttaagtacactatctcttatg---gtgtttcttctaatattcaatatgtgtattcttttcttctgaactcttcagGGTATGAGCCAACTTGAGCTGGAAGATGAGGTTCAAGACGATCTCAAACGTGCTACTGGGGAGTTTACCAAGGATGCAGATGATGCAAATAAGCTCAATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttgtaaacattttgagtttcttgattacagtttgtttgcacataattttctagGGTATGAGCCAGCTTGAACTGGAAGATGAGGTGCAAGATGATCTCAAATGTGCTACTGGAGGGTTCACAAAGGATGGAGATGATGTAAATAAACTTAATC
tcttgat putative branch site (score: 4)
ttttct putative PPT
ataattttcta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actctttaaatatttggtcatggaatctagaaagccccatattgtgtttgtaaacattttgagtttcttgattacagtttgtttgcacataattttctagGGTATGAGCCAGCTTGAACTGGAAGATGAGGTGCAAGATGATCTCAAATGTGCTACTGGAGGGTTCACAAAGGATGGAGATGATGTAAATAAACTTAATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - -ggtcatg
- - - - - - - - - - - - - - - - - ccccata
- - - - - - - - - - - - - - - - - - - - - - - - -gtaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtttgc