Sequence
atgc intronic sequence ATGC exonic sequence...tgcatggaaatatttaatacaactatcatactcaaaactgacaaccttccttgactagaccattgaattgaattttcttgttttatgcatttgttattagGTGCTCAGATGCATATTCAGATACTATGCTGGGATATGCTAATAGCATACGCACAATTGATGGGGGTACTCATATCGATGGTATGAAGGCTTCTTTGACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g05120.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os01g16290.1 (Oryza sativa), 3'ss of exon 10
tgcatggaaatatttaatacaactatcatactcaaaactgacaaccttccttgactagaccattgaattgaattttcttgttttatgcatttgttatt---agGTGCTCAGATGCATATTCAGATACTATGCTGGGATATGCTAATAGCATACGCACAATTGATGGGGGTACTCATATCGATGGTATGAAGGCTTCTTTGACA
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-tcact-atctcttcattttcctccttctaggtcttactgaatagcagc-tagatagaagttttgtgccttattctgaaacagaaaatgtttgctatttacagGTGCTCTGATTCATACTCTGATACGGTGCTAGGATATGCTAACAGTATCCGTACTATTGATGGTGGTACTCATATTGATGGGCTGAAGACTTCATTGACA
upper sequence: Vv08s0007g05120.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G111014_T01 (Zea mays), 3'ss of exon 10
tgcatggaaatatttaatacaactatcatactcaaaactgacaacc-ttccttgacta-gaccattgaattgaattttcttgttttatgcatt----------tgttattagGTGCTCAGATGCATATTCAGATACTATGCTGGGATATGCTAATAGCATACGCACAATTGATGGGGGTACTCATATCGATGGTATGAAGGCTTCTTTGACA
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-----------gttttaca-attcgttatattctgttccagtgtttattatttgactacgagggaataattttgtgctcccttctgaagcaataaattgtccccatttacagGTCCTCTGATTCCTACTCTGATACAGTGCTAGGATACGCAAACAGTATCCGCACTATTGATGGTGGTACTCATATTGATGGTCTAAAGGCTTCATTGACG
upper sequence: Vv08s0007g05120.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA03G28290.1 (Glycine max), 3'ss of exon 10
--tgcatggaaatatttaatacaact-atcatactcaaaactgacaaccttccttgactagaccattgaattgaattttcttgttttatgcatttgttattagGTGCTCAGATGCATATTCAGATACTATGCTGGGATATGCTAATAGCATACGCACAATTGATGGGGGTACTCATATCGATGGTATGAAGGCTTCTTTGACA
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aatgaacaatggaattgtatatttttcagtataat-atggctgacaactattcataattc--cttattagtatatgtgattcatttcatttcttctttaccagGTGTGAAGATGCATATTCAGATACAATACTGGGATATGCTAATAGTATACGCACTATTGATGGTGGTACTCATATTGATGCTATGAAGGCTTCTATAACA
upper sequence: Vv08s0007g05120.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA19G31030.1 (Glycine max), 3'ss of exon 10
tgcatggaaatatttaataca-actatcatactcaaaactgacaaccttccttgactagaccattgaattgaattttcttgttttatgcatttgttattagGTGCTCAGATGCATATTCAGATACTATGCTGGGATATGCTAATAGCATACGCACAATTGATGGGGGTACTCATATCGATGGTATGAAGGCTTCTTTGACA
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aaaatgaacaatggaattgtatattttcctgtataatatggttgacaactattgataattccattttagtttgtgat-tcatttcattgcttctttaccagGTCTGAAGATGCATATTCAGATACAATACTGGGATATGCTAATAGTATACGCACTATTGATGGTGGCACTCATATTGATGCTATGAAGGCTTCTATAACA
upper sequence: Vv08s0007g05120.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT5G04130.1 (Arabidopsis thaliana), 3'ss of exon 10
tgcatggaaatatttaatacaactatcatactcaaaactgacaaccttccttgactagacca--ttgaattgaattttcttgttttatgcatttgt-tattagGTGCTCAGATGCATATTCAGATACTATGCTGGGATATGCTAATAGCATACGCACAATTGATGGGGGTACTCATATCGATGGTATGAAGGCTTCTTTGACA
| | || | | | | ||| || || | | | ||||| | | | || ||| || | | ||| ||||| | || ||||||||||||||||||||||| || |||||||||||||| |||||||| ||||| |||||||| || || || ||||| ||| |||| ||||| || |||
--attctcgacatgctgt-cgtttgttttacacacaaatacacataatataggactattctaaatggatctgatgttattggctttgcacatttttgtaccagGTGCTCAGATGCATATTCAGACACAATGCTGGGATATGCCAATAGCATTCGCACTATTGATGGTGGAACACACATCGAAGGTGTGAAAGCTTCATTAACA
upper sequence: Vv08s0007g05120.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT3G10270.1 (Arabidopsis thaliana), 3'ss of exon 10
tgcatggaaatatttaatacaactatcatactcaaaactg-acaaccttccttgactagacc--attgaattgaattttcttgttttatgcatttgtt--attagGTGCTCAGATGCATATTCAGATACTATGCTGGGATATGCTAATAGCATACGCACAATTGATGGGGGTACTCATATCGATGGTATGAAGGCTTCTTTGACA
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-----gatgactgtatatacagttcttctagacgaatatgtgtatatcatggtagctatccaaaatttatatggatctaagtatataatctcgttattgtaccagGTGCTCAGATGCCTATTCAGACACGATGCTGGGATACGCGAATAGTATTCGGACCATAGATGGTGGGACACATATAGAAGGTGTGAAGGCTTCATTAACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttccttgactagaccattgaattgaattttcttgttttatgcatttgttattagGTGCTCAGATGCATATTCAGATACTATGCTGGGATATGCTAATAGCATACGCACAATTGATGGGGGTACTCATATCGATGGTATGAAGGCTTCTTTGACA
ccttgac putative branch site (score: 4)
aattgaattttcttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcatggaaatatttaatacaactatcatactcaaaactgacaaccttccttgactagaccattgaattgaattttcttgttttatgcatttgttattagGTGCTCAGATGCATATTCAGATACTATGCTGGGATATGCTAATAGCATACGCACAATTGATGGGGGTACTCATATCGATGGTATGAAGGCTTCTTTGACA
- - -ggaaata
- - - - - - - -aatacaa
- - - - - - - - - - - - - - - - caaaact
- - - - - - - - - - - - - - - - - - - - - - ccttcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aattgaa