Sequence
atgc intronic sequence ATGC exonic sequence...tgtgatttatggattgtttcctctttattaaaattacttctttagatcaaagctgtatgtggctgactatgttagtgattggtctctggttcttgtgcagGAGTGTTTTATCTATACATGAAAACCATTGAAAGAGCCCATATGCCAAACAAATTATGGGAACGGGTTAAATTGCCACGAAACTACGGAAAGGCTCTTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g09220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os07g16950.5 (Oryza sativa), 3'ss of exon 2
tgtgatttatggattgtttcctctttattaaaattacttctttagatcaaagctgtatgtggctgactatgttagtgattggtctctggttcttg----tgcagGAGTGTTTTATCTATACATGAAAACCATTGAAAGAGCCCATATGCCAAACAAATTATGGGAACGGGTTAAATTGCCACGAAACTACGGAAAGGCTCTTGA
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----attgttttgctcccggttctttcccaacttatgtataccatcttaatattttttttgttacattctgtttcatttctctctcttttttctggccttgcagGTATTTTCTACCTATACATGAAAACAGCTGAAAGAGCCCATCTTCCGAACAAATTATGGGAGAGGGTCAAACTACCCAGAAATTATGAGAAAGCAATGGA
upper sequence: Vv17s0000g09220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G461793_T01 (Zea mays), 3'ss of exon 2
---tgtgatttatggattgtttcctctttattaaaattacttctttagatcaaagctgtatgtggctgact-atgttagtgattggtctctggttcttgtgcagGAGTGTTTTATCTATACATGAAAACCATTGAAAGAGCCCATATGCCAAACAAATTATGGGAACGGGTTAAATTGCCACGAAACTACGGAAAGGCTCTTGA
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ttttttgtgctatgaactattaaccttgaagggagcctatgcttacaaa---aatctttttctgatgctctcatgtttttttctt-cctcaatcggttatgcagGTATTTTCTATCTGTATATGAAAACCGCCGAAAGAGCTCATCTGCCAAACAAATTATGGGAGAGAGTCAAACTGCCGAAGAATTATGAGAAAGCAATGGA
upper sequence: Vv17s0000g09220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G14000.1 (Glycine max), 3'ss of exon 2
tgtgatttatggattgtttcctctttattaaaattacttctttagatcaaagctgtatg-tggctgactatgttagtgattggtctctggttcttg-tgcagGAGTGTTTTATCTATACATGAAAACCATTGAAAGAGCCCATATGCCAAACAAATTATGGGAACGGGTTAAATTGCCACGAAACTACGGAAAGGCTCTTGA
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-aacactcccaaat-gattattctgatgtatggaaaatgcaataagtggggaattcatggcagagtattcaaatagtgatgatattacattgggtgctgcagGAGTGTTTTACCTTTACATGAAAACTATTGAAAGAGCTCATATGCCGAAAGATTTGTGGGAAAGAGTAAAGCTTCCTAGGAATTACGAGAAGGCACTTGA
upper sequence: Vv17s0000g09220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G43930.1 (Glycine max), 3'ss of exon 2
tgtgatttatggattgtttcctctttattaaaattacttctttagatcaaagctgtatgtggctgactatgttagtgattggtctctggttcttg----tgcagGAGTGTTTTATCTATACATGAAAACCATTGAAAGAGCCCATATGCCAAACAAATTATGGGAACGGGTTAAATTGCCACGAAACTACGGAAAGGCTCTTGA
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--aaatgcccctaatggttatcctgatgaatggccaatgctataagtggggaattcatg--gcagagtatgcaaataatcatgatattgcattggatgttgcagGAGTGTTTTACCTTTACATGAAAACTATCGAAAGAGCTCATATGCCGAAAGATTTGTGGGAAAGAGTAAAGTTGCCAAGGAATTATGAGAAGGCACTTGA
upper sequence: Vv17s0000g09220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G23280.1 (Arabidopsis thaliana), 3'ss of exon 2
---------------------------------------------------------------------tgtgatttatggattgtttcctctttattaaaat-tacttctttagatcaaagctgtatgtggctgactat-gttagtgattggtctc-------tggttcttgtgcagGAGTGTTTTATCTATACATGAAAACCATTGAAAGAGCCCATATGCCAAACAAATTATGGGAACGGGTTAAATTGCCACGAAACTACGGAAAGGCTCTTGA
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gtaatttttagaaaagtgtcaatctttgagctgattctgtgtgttggaatagttaggattgggtgttgatttagtttacgtagtaaagggcaattagaaagatgtttcttttgagtttagtgttgt-tgtggtggtttcttacaaatggattttcttgtgttgttgttgtttatacagGAGTGTTTTATTTATATATGAAGACTATTGAGAGAGCTCACATGCCAAATAAATTGTGGGAGAGAGTTAAGCTGCCTGTAAACTATGAGAAGGCTCTTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcaaagctgtatgtggctgactatgttagtgattggtctctggttcttgtgcagGAGTGTTTTATCTATACATGAAAACCATTGAAAGAGCCCATATGCCAAACAAATTATGGGAACGGGTTAAATTGCCACGAAACTACGGAAAGGCTCTTGA
ggctgac putative branch site (score: 3)
ttcttgt putative PPT
tatgtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtgatttatggattgtttcctctttattaaaattacttctttagatcaaagctgtatgtggctgactatgttagtgattggtctctggttcttgtgcagGAGTGTTTTATCTATACATGAAAACCATTGAAAGAGCCCATATGCCAAACAAATTATGGGAACGGGTTAAATTGCCACGAAACTACGGAAAGGCTCTTGA
- - - - - - - tgtttcc
- - - - - - - - - - - - - - -aaaatta
- - - - - - - - - - - - - - - - - - - - - - - -caaagct
- - - - - - - - - - - - - - - - - - - - - - - - - - - gtatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgattgg