Sequence
atgc intronic sequence ATGC exonic sequencegttagctcttggcataaatacaagaatttttggcagtttattctcccccccccccctttatttgttttcaaagaaaagccatccgtttgggcaaatgcttatatgtgggtttggttgtttcagCTGGCTTTTGAGGCACATGATGGCCAAAAAAGACGCAGTGGAGAGCCCTTTATCATTCATCCAGTTGAAGTTGCACGTATTCTGGGAGAACTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g00770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G353147_T01 (Zea mays), 3'ss of exon 3
gttagctcttggcataaatacaagaatttttggcagtttattctcccccccccccctttatttgttttcaaagaaaagccatccgtttgggcaaatgcttatatgtgggtttggttgtttcagCTGGCTTTTGAGGCACATGATGGCCAAAAAAGACGCAGTGGAGAGCCCTTTATCATTCATCCAGTTGAAGTTGCACGTATTCTGGGAGAACTC
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--------------------------------gtaactggttcacaatatcttcc-ttcagtgctatttgagaaaagactgcacgaacgtctgcatcactatagttca--ttaataaccgcagTTGGCATATGAAGCACACAGTGGACAAAAACGGCGAAGTGGAGAACCATTCATTATTCATCCTGTTGAAGTTGCTCGTATTCTTGGAGAGCAT
upper sequence: Vv07s0005g00770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G37450.1 (Glycine max), 3'ss of exon 6
gttagctcttggcataaatacaagaatttttggcagtttattctcccccccccccctttatttgttttcaaagaaaagccatccgtttgggcaaatgcttatatgtgggtttggttgtttcagCTGGCTTTTGAGGCACATGATGGCCAAAAAAGACGCAGTGGAGAGCCCTTTATCATTCATCCAGTTGAAGTTGCACGTATTCTGGGAGAACTC
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gtgagttgattacctcaaga-agcaatcttagcatgctctttctggcaaaatcatctcctgaacatagttggatttatttatttttttgttttgtttctgttttatt--cctggttgttacagTTGGCGTTTAAAGCTCATGATGGTCAGAAAAGACGCAGTGGTGAACCCTTCATCATTCACCCAGTCGAGGTTGCACGTATTCTGGGAGAACTT
upper sequence: Vv07s0005g00770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G40050.1 (Glycine max), 3'ss of exon 4
gttagctcttggcataaatacaagaatttttggcagtttattctcccccccccccctttatttgttttcaaagaaa--agccatccgtttgggcaaatgcttatatgtgggtttggttgtttcagCTGGCTTTTGAGGCACATGATGGCCAAAAAAGACGCAGTGGAGAGCCCTTTATCATTCATCCAGTTGAAGTTGCACGTATTCTGGGAGAACTC
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gtgagttgattacctcaaga--agcaatcttggca-cgcactttttggcaaaatcatctcttcaacatagtaggatttacttacttattttgtttcgtttctgttt-tattcctggttgttacagTTGGCGTTTAAAGCTCATGATGGTCAGAAAAGACGCAGTGGTGAACCCTTCATCATTCACCCAGTCGAGGTTGCACGCATTCTGGGAGAACTT
upper sequence: Vv07s0005g00770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S194_9V6.1 (Physcomitrella patens), 3'ss of exon 3
--------------------------------------------------------------------------gttagctcttggcataaatacaagaatttttggcagtttattctcccccccccccctttattt---gttttcaaagaaaagccatccgtttgggcaaatgcttatatgtgggt-ttggttgtttcagCTGGCTTTTGAGGCACATGATGGCCAAAAAAGACGCAGTGGAGAGCCCTTTATCATTCATCCAGTTGAAGTTGCACGTATTCTGGGAGAACTC
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gtcaattcgcttaactatactgccattgagttttgtgagtttttttaatttttttttcggtgtatgacttgttcatgagttcatccttaagcaactggttttagacacagcctgtggagtgtgggaacaattgatttctggttttcaaaaaagaatttgcagtcttca-gtctgctaattcatttctgttcgttcttgcagCTGGCATTCGAAGCTCACGATGGTCAAAAGCGGAAGAGTGGGGAACCTTTCATCATTCATCCTGTTGAAGTTGCCCGAATTCTGGGAGAGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caaagaaaagccatccgtttgggcaaatgcttatatgtgggtttggttgtttcagCTGGCTTTTGAGGCACATGATGGCCAAAAAAGACGCAGTGGAGAGCCCTTTATCATTCATCCAGTTGAAGTTGCACGTATTCTGGGAGAACTC
ttgtttc CT-rich tract
ttatatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagctcttggcataaatacaagaatttttggcagtttattctcccccccccccctttatttgttttcaaagaaaagccatccgtttgggcaaatgcttatatgtgggtttggttgtttcagCTGGCTTTTGAGGCACATGATGGCCAAAAAAGACGCAGTGGAGAGCCCTTTATCATTCATCCAGTTGAAGTTGCACGTATTCTGGGAGAACTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA