Sequence
atgc intronic sequence ATGC exonic sequence...tttttttttttctttacctctctcttatccttgatatctctgtttgagctttgcttcacatggctaacagatgattttcttctaaaattgtaaaatgtagTGGGTTTTGTCATCAAAGGAAATAAATTTCCCCTACCCACTTGGACTGACTCTGCTTCACATGGTCTTCTCCTCTGTATTGTGCTTTATTCTCACCAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g00460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G022793_T01 (Zea mays), 3'ss of exon 1
tttttttttttctttacctctctcttatccttgatatct-ctgtttgagctttgcttcacatggctaacagatgattt--tcttctaaaattgtaaaatgtagTGGGTTTTGTCATCAAAGGAAATAAATTTCCCCTACCCACTTGGACTGACTCTGCTTCACATGGTCTTCTCCTCTGTATTGTGCTTTATTCTCACCAGAG
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---ttccctacgctagcagttgcatcactattcattcctgctgtgaattcaatgactagccagtcttattagctgctaagtatttggtttttccttggtgcagTGGGTCTTATCCTCCAAAGAGATCAACTTTCCCTATCCCGTGGCACTGACTCTGCTGCACATGGTCTTCTCCTCTGTAGTGTGCTTTGCAATCACAAAAG
upper sequence: Vv15s0046g00460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA15G40160.1 (Glycine max), 3'ss of exon 1
tttttttttttctttacctctctcttatccttgatatctctgtttgagctttgcttca-catggctaacagatgattt-tcttctaaaattgtaaaatgtagTGGGTTTTGTCATCAAAGGAAATAAATTTCCCCTACCCACTTGGACTGACTCTGCTTCACATGGTCTTCTCCTCTGTATTGTGCTTTATTCTCACCAGAG
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-ctagatttatgcttaaatcgtgattggt-ttaatctgaggaatgaatcgaggagaaaatgtgtctgatgcatattttgtcttttcaatttgttatctgcagTGGGTTTTGTCCTCTAAGGAAATTAACTTCCCTTATCCTTTGGGCTTGACTCTACTTCACATGGTCTTCTCCTCTGTTCTGTGTTTTGTGTTAACCAAGA
upper sequence: Vv15s0046g00460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G18730.1 (Glycine max), 3'ss of exon 2
tttttttttttctttacctctctcttatccttgatatctctgtttgagctttgcttc---acatggctaacagatgattt-tcttctaaaattgtaaaatgtagTGGGTTTTGTCATCAAAGGAAATAAATTTCCCCTACCCACTTGGACTGACTCTGCTTCACATGGTCTTCTCCTCTGTATTGTGCTTTATTCTCACCAGAG
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---tggttcaatttaaggaatgaataatcaaggataaaa-tgctgaaattctgtgttgttatgtggctgatgcatattctgtcttttcaatttgttgtctgcagTGGGTTTTGTCTTCTAAGGAAATTAACTTCCCTTATCCTTTGGGGTTGACTCTACTTCACATGGTCTTCTCCTCTGTTCTGTGTTTTGTGTTAACCAAGA
upper sequence: Vv15s0046g00460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G14410.1 (Arabidopsis thaliana), 3'ss of exon 1
tttttttttttctttacctctctcttatccttgatatctctgtttgagctttgcttcacatggc-taacagatgattttcttctaaaattg-taaaatgtagTGGGTTTTGTCATCAAAGGAAATAAATTTCCCCTACCCACTTGGACTGACTCTGCTTCACATGGTCTTCTCCTCTGTATTGTGCTTTATTCTCACCAGAG
|| ||| | || | | | ||| | || | || || | | | || | | |||| | | ||||| | || |||||||||||||||| |||||||| |||||||| || || |||||| ||||| | || || ||| |||| |||||||| ||||||||| |||| |||| ||
-ttcaccgttttacaatctgtagcaagtaac-gattcatagattgtggtttctctcttttcgtcatgactaacgtttttgtctttgaattgctctgctgcagTGGGTTTTGTCATCTAAGGAAATTAATTTCCCTTATCCTCTTGGATTGACTTTACTCCATATGATCTTTTCCTCTGTCTTGTGCTTTCTTCTTACCAAAG
upper sequence: Vv15s0046g00460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G53660.1 (Arabidopsis thaliana), 3'ss of exon 1
tttttttttttctttacctctctcttatccttgatatctctgtttgagctttgcttcacatggctaacagatgatttt-cttctaaaattgtaaaatgtagTGGGTTTTGTCATCAAAGGAAATAAATTTCCCCTACCCACTTGGACTGACTCTGCTTCACATGGTCTTCTCCTCTGTATTGTGCTTTATTCTCACCAGAG
|| ||| | | | | | || | | ||| | | | | ||| | | | || |||| |||| | | ||| ||||||| |||||||| ||||||||||| ||||| || ||||||||| |||| | ||||||||| || |||||||| ||||| ||| | ||||| | |
-ttcaaacttttgtaaattttggttcattccatttctctttagcttctttcagtttcttttttccagcactaatttttatttctgactcaatctgatgcagTGGGTATTGTCATCTAAGGAAATAAACTTCCCTTATCCACTTGGATTGACATTACTTCACATGACTTTTTCCTCTGTTTTGTGTTTTCTCCTCACGAAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagctttgcttcacatggctaacagatgattttcttctaaaattgtaaaatgtagTGGGTTTTGTCATCAAAGGAAATAAATTTCCCCTACCCACTTGGACTGACTCTGCTTCACATGGTCTTCTCCTCTGTATTGTGCTTTATTCTCACCAGAG
ttctaaa putative branch site (score: 2)
attttcttctaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttttttttctttacctctctcttatccttgatatctctgtttgagctttgcttcacatggctaacagatgattttcttctaaaattgtaaaatgtagTGGGTTTTGTCATCAAAGGAAATAAATTTCCCCTACCCACTTGGACTGACTCTGCTTCACATGGTCTTCTCCTCTGTATTGTGCTTTATTCTCACCAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - -ctctctc
- - - - - - - - - - - - - - - - - - - -ctgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - ttgcttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -acatggc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taacaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaattg