Sequence
atgc intronic sequence ATGC exonic sequence...tttcggaggctgacgagggcttactttgcagtcttggaggtttcactcaacagccgtgttattcttttatattgaatctggatacaaacacctgctgcagCCATCCTCTTTACCGTGAATCAGATCTTATTAATGAGAATGTGCTTGGAGTGCGGAATGCTGCACAAAGAAAGCTATTGGGTGAACTCGGCATTCCTGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0206g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G133082_T01 (Zea mays), 3'ss of exon 3
tttcggaggctgacg-agggcttactttgcagtcttggaggtttcactcaacagccgtgttattcttttatatt--------gaatctggatacaaacacctgctgcagCCATCCTCTTTACCGTGAATCAGATCTT-ATTAATGAGAATGTGCTTGGAGTGCGGA-ATGCTGCACAAAGAAAGCTATTGGGTGAACTCGGCATTCCTGCT
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---------ttactgcattgctatttctctaaactagcttgtctaaatcaaagggtatttcctaagtctgtttaccgcagaagatattgtaaaatcatatcctttacagCAAAGGTCTGCAACAAAAGTGACATTTCCACTTGTCTGGACAAACACCTGCTGTAGCCATCCTCTCTACCGCGAGTCA--GAGTTGATTGAGGAAAATTGTG
upper sequence: Vv11s0206g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G145029_T01 (Zea mays), 3'ss of exon 3
------tttcggaggctgacgagggcttactttgcagtcttggaggtttcactcaacagccgtgttattcttttatattgaatctggatacaa-acacctgctgcagCCATCCTCTTTACCGTGAATCAGATCTT-ATTAATGAGAATGTGCTTGGAGTGCGGA-ATGCTGCACAAAGAAAGCTATTGGGTGAACTCGGCATTCCTGCT
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ctactgcattgttatttctctaaa-ctagcttgactaaattgaag--tgtattttctaagcttgtt----taccaaagaagatattgtaacatcatattctttacagCAAAGGTCTGCAACAAAAGTGACATTTCCACTTGTCTGGACAAACACCTGCTGTAGCCATCCTCTCTACCGCGAGTCA--GAGTTGATTGAGGAAAATTGTG
upper sequence: Vv11s0206g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G47770.1 (Glycine max), 3'ss of exon 3
tttcggaggctgacgagggcttactttgcagtcttggaggtttcactcaacagccgtgttattcttttatattgaatctggatacaaacacctgctgcagCCATCCTCTTTACCGTGAATCAGAT---CTTATTAATGAGAATGTGCTTGGAGT-GCGGAATGCTGCACAAAGAA----AGCTATTGGGTGAACTCGGCATTCCTGCT
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tggtggaaatttctctatgtatcatgtgtattttcatgtcttggactcgtgctttaatttggtctctttgactgagattccttgttctt-tatgatgaagcAACGATCTGCAACCAAGGTAACATTCCCTCTTGTGTGGACAAACACCTGTTGCAGCCATCCACTGTACCGTGAATCTGAGCTTATTGATGAGAATGCCCT-------
upper sequence: Vv11s0206g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G38550.1 (Glycine max), 3'ss of exon 3
-tttcggaggctgacgagggcttactttgcagtcttggaggtttcactcaacagccgtgttattcttttatattgaa--tctggatacaaacacctgctgcagCCATCCTCTTTACCGTGAATCAGATCTTATTAATGAGAATGTGCTTGGAGT-GCGGAATGCTGCACAAAGAAAGCTATTGGGTGAACTCGGCATTCCTGCT
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ttggtgaaaaattctctatgttgcatgtgtattttcaagtctttgactcgtgttttaatttggtctgtttgactgagattctttgttctttatgatgaagCAACGATCTGCAACAAAGGTAACTTTCCCTCTTGTGTGGACAAACACCTGTTGTAGCCATCCTCTGTACCGTGAATCTGAGCTTATTGA-TGAGAATGCCC---
upper sequence: Vv11s0206g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G16440.1 (Arabidopsis thaliana), 3'ss of exon 3
-----------------------------------------------------------tttcggaggctgacgagggcttactttgcagtcttgga-ggtttcactcaacagccgtgttattcttttatattgaatctggatacaaacacctgctgcagCCATCCTCTTTACCGTGAATCAGATCTTATTAATGAGAATGTGCTTGGAGTGCGGAATGCTGCACAAAGAAAGCTATTGGGTGAACTCGGCATTCCTGCT
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cacgtagctttatcataaaaatggttggttgggttttggcgttgcttgcttcagagtatgtgaccatcctactgaaattttcttcttctcttatggacagCAACGGTCAAAAACAAAGGT-TACTTTCCCACT---TGTGTGGACAAACACTTGTTGCAGCCATCCTCTTTACCGTGAATCCGAGCTTATTGAAGAGAATGTGC--------------------------------------------------------
upper sequence: Vv11s0206g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G02780.1 (Arabidopsis thaliana), 3'ss of exon 3
-----------tttcggaggctgacgagggcttactttgc-----agtcttggaggtttcactcaacagccgtgttattcttttatattgaatctggatacaaacacctgctgcagC-----CATCCTCTTTACCGTGAATCAGATCTTATTAATGAGAATGTGCTTGGAGTGCGGAATGCTGCACAAAGAAAGCTATTGGGTGAACTCGGCATTCCTGCT
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gttgctatgatgatgggatgctctcgtgatcgtagatggttggtgggttttaataatctggctcatatgtcatctgactggtttcttctcgtttgaacagCAAAGGTCAAACACAAAGGTTACGTTCCCTCTAGTGTGGACTAACACTTGTTGCAGCCATCCTCTTTACCGTGAATCAGAGCTTATCCAGGACAATGCAC--------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctcaacagccgtgttattcttttatattgaatctggatacaaacacctgctgcagCCATCCTCTTTACCGTGAATCAGATCTTATTAATGAGAATGTGCTTGGAGTGCGGAATGCTGCACAAAGAAAGCTATTGGGTGAACTCGGCATTCCTGCT
tgttattcttttatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttcggaggctgacgagggcttactttgcagtcttggaggtttcactcaacagccgtgttattcttttatattgaatctggatacaaacacctgctgcagCCATCCTCTTTACCGTGAATCAGATCTTATTAATGAGAATGTGCTTGGAGTGCGGAATGCTGCACAAAGAAAGCTATTGGGTGAACTCGGCATTCCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - tgcagtc
- - - - - - - - - - - - - - - - - - - - - tcactca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atacaaa