Sequence
atgc intronic sequence ATGC exonic sequence...aaatctatcttgtaaatccatgttcaagagagatatctttgttccataagaaatgtcaagcctatgaaaatattttcttaccaagagaagtatggtgcagCCTTGTAATCCTGCTGTAGGTGGACCTGCAAAGTCACAATTGGTACATGAAGTGGATGCACTCGGTGGTGAAATTGGAAAAGTTGCTGATAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0044g01690.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G481548_T01 (Zea mays), 3'ss of exon 2
aaatctatc-ttgtaaatccatgttcaagagagat-atctttgttccataagaaatgtcaagcctatgaaaatattttcttaccaagagaagtatggtgcagCCTTGTAATCCTGCTGTAGGTGGACCTGCAAAGTCACAATTGGTACATGAAGTGGATGCACTCGGTGGTGAAATTGGAAAAGTTGCTGATAG
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-agcctataactataaggaaacattctttgtcaatgaattccatttaaattttagtattagaagtgtggttctgcttcaac-tcatcttctgccctacccagCCTTGTAACCCTGCTGTTGGTGGCCCTGCGAAGTCTCAACTTGTCCATGAGGTAGATGCCCTTGGTGGTGAAATTGGAAAAATTACTGATAG
upper sequence: Vv04s0044g01690.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G133039_T01 (Zea mays), 3'ss of exon 1
aaatctatc-ttgtaaatccatgttcaagagagat-atctttgttccataagaaatgtcaagcctatgaaaatattttcttaccaagagaagtatggtgcagCCTTGTAATCCTGCTGTAGGTGGACCTGCAAAGTCACAATTGGTACATGAAGTGGATGCACTCGGTGGTGAAATTGGAAAAGTTGCTGATAG
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-agcctataactataaggaaacattctttgtcaatgaattccatttaaattttagtattagaagtgtggttctgcttcaac-tcatcttctgccctacccagCCTTGTAACCCTGCTGTTGGTGGCCCTGCAACGTCTCAACTTGTCCATGAGGTAGATGCCCTTGGTGGTAAAATTGGAAAAATTACTGATAG
upper sequence: Vv04s0044g01690.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AC186604.4_FGT003 (Zea mays), 3'ss of exon 3
-----------------------------aaatct----atcttgtaaatccatgttcaagagagatatctttgttccataag--------aaatgtcaagcctatgaaaatattttcttaccaagagaagtatggtg--cagCCTTGTAATCCTGCTGTAGGTGGACCTGCAAAGTCACAATTGGTACATGAAGTGGATGCACTCGGTGGTGAAATTGGAAAAGTTGCTGATAG
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gaagagatgatttttgattagtatgttgcatatcttagtatgctatagcctataactataaggaaacattctttgttaatgaattccatttaaattttagTATTAGAAGTGTAGTTCTGCTTCAACTCATCTACCCTACCCAGCCTTGTAACCCTGCTGTTGGTGGCCCTGCAAAGTCTCAACTTGTCCATGAGGTAGAT-----------------------------------
upper sequence: Vv04s0044g01690.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G052933_T01 (Zea mays), 3'ss of exon 1
-----------------------------aaatct----atcttgtaaatccatgttcaagagagatatctttgttccataaga--aatgtcaagccta----tgaaaatattttcttaccaagagaagtatggtgc-------agCCTTGTAATCCTGCTGTAGGTGGACCTGCAAAGTCACAATTGGTACATGAAGTGGATGCACTCGGTGGTGAAATTGGAAAAGTTGCTGATAG
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gaatagatgatttttgattagtatgttgcatatcttagtatgctatagcctataactataaggaaacattctttgtcaatgaattccatttaaattttagTATTAGAAGTGTGGTTCTGCTTGAACTCATCTTCTGCCCTACCCAGCCTTGTAACCCTGCTGTTGGTGGCCCTGCAAAGTCTCAACTTGTCCATGAGGTA--------------------------------------
upper sequence: Vv04s0044g01690.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G13440.1 (Arabidopsis thaliana), 3'ss of exon 2
aaatctatcttgtaaatccatgttcaagagagatatctttgttccataagaaatgtcaagcctatgaaaatattttcttaccaagagaagtatggtgcagCCTTGTAATCCTGCTGTAGGTGGACCTGCAAAGTCACAATTGGTACATGAAGTGGATGCACTCGGTGGTGAAATTGGAAAAGTTGCTGATAG
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-----------gtttgactttagtcataattggttacatactt--gttagaattgt--ggtatatgagtgtgacatattgttacgtgaag-
upper sequence: Vv04s0044g01690.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S4_383V6.1 (Physcomitrella patens), 3'ss of exon 2
--------------------------------------------aaatctatcttgtaaatccatgttcaagagagatatctttgttccataaga---aatgtcaagcctatgaaaatattttcttaccaagagaagtat---ggt---gcagCCTTGTAATCCTGCTGTAGGTGGACCTGCAAAGTCACAATTGGTACATGAAGTGGATGCACTCGGTGGTGAAATTGGAAAAGTTGCTGATAG
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gtggctttctgtttcattttttttgcagtgctatataccacgagattttcagatcaaatgttgactttgaaattaagtttctttcttgcttctgttgtaaaattttgcatacccttaattcttgggactttgggggttgttctggttgagtagCCGTGTAATCCAGCAGTAGGTGGCCCTGCGAAATCTCAATTGGTTCATGAAGTGGATGCTCTTGGTGGCGAAATAGGGAGGATGGCCGATAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataagaaatgtcaagcctatgaaaatattttcttaccaagagaagtatggtgcagCCTTGTAATCCTGCTGTAGGTGGACCTGCAAAGTCACAATTGGTACATGAAGTGGATGCACTCGGTGGTGAAATTGGAAAAGTTGCTGATAG
ttcttac putative branch site (score: 2)
tatgaaaatattttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatctatcttgtaaatccatgttcaagagagatatctttgttccataagaaatgtcaagcctatgaaaatattttcttaccaagagaagtatggtgcagCCTTGTAATCCTGCTGTAGGTGGACCTGCAAAGTCACAATTGGTACATGAAGTGGATGCACTCGGTGGTGAAATTGGAAAAGTTGCTGATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - -ccatgtt
- - - - - - - - - - - - - agagaga
- - - - - - - - - - - - - - - - - - - - - - -ataagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tcaagcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagagaa