Sequence
atgc intronic sequence ATGC exonic sequence...ttgttcttagtactttatttatattgagagggtgtcatttcatctttttcccaaaacataaaacaaatgttaagatgtgccatgttattaaaatgagcagATAATTTGGTGGAGAATCTCTTAGGGGATTTTGAGTATGAAGTTCAGGTTCCATATCTATTATATCGAAATGCAGCCCAAGAAGTCAATGGTATTTGGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0080g00860.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G131120_T01 (Zea mays), 3'ss of exon 3
ttgttcttagtactttat-ttatattgagagggtgtcatttcatctttttcccaaaacataaaacaaatgttaagatgtgcc--atgttattaaaatgagcagATAATTTGGTGGAGAATCTCTTAGGGGATTTTGAGTATGAAGTTCAGGTTCCATATCTATTATATCGAAATGCAGCCCAAGAAGTCAATGGTATTTGGTT
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--cttcttcactcttcacactgtgttgttaaactggtacatatggaggaaaactgatcattgtgccagattcatgaaaagcttaatagtgtcttcttga-cagATAATTTGGTGGAGGATTTATTAAGCGATTTTGAATATGAACTTCAGCCACCATATTTGCTGTACCGAAATGCTTCCCAAGAAGTAAATGGTATTTGGTT
upper sequence: Vv06s0080g00860.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G39120.1 (Glycine max), 3'ss of exon 3
ttgttcttagtactttatttatattga----gagggtgtcatttcatctttttccca-aaacataaaacaaatgttaagatgtgccatgttattaaaatgagcagATAATTTGGTGGAGAATCTCTTAGGGGATTTTGAGTATGAAGTTCAGGTTCCATATCTATTATATCGAAATGCAGCCCAAGAAGTCAATGGTATTTGGTT
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--taaataaatgctgtattcttactagacttgttggtggagaactacctaatgcccatgcatgtaacttgcattttactcttttccatgctggca---taagcagAAAATTTGGTGGAGAATCTCTTGGGCGATTTTGAGTATGAAGTTCAGATTCCATATTTACTGTATAGAAATGCTGCTCAAGAAGTGAATGGTATCTGGTT
upper sequence: Vv06s0080g00860.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G08370.1 (Arabidopsis thaliana), 3'ss of exon 3
----------------------------------ttgttcttagtactttatttatattgag-agggtgtcatttcatctttttcccaaaacataaaacaaatgttaa--gatgtgccatgttattaaaatgagcagATAATTTGGTGGAGAATCTCTTAGGGGATTTTGAGTATGAAGTTCAGGTTCCATATCTATTATATCGAAATGCAGCCCAAGAAGTCAATGGTATTTGGTT
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gtcaggatttattcaaataaagttggtgtgtgtcatgtgtctagaaaag-gtttagatttagtaatatattgcaagttcttattta-aggattcagtattagtaatcatcagtgtgttgctgtatttgtctggatagATAATCTGGTGGAGAATCTCCTGGGAGATTTTGAGTATGAAGTACAAGGTCCATATTTACTTTACCGTAATGCATCTCAAGAAGTAAATGGCATTTGGTT
upper sequence: Vv06s0080g00860.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S14_29V6.1 (Physcomitrella patens), 3'ss of exon 3
ttgttcttagtactttatttatattgagagggtgtcatttcatcttttt---cccaaaa-----cataaaacaaatgttaagatgtgccatgttattaaa--atgagcagATAATTTGGTGGAGAATCTCTTAGGGGATTTTGAGTATGAAGTTCAGGTTCCATATCTATTATATCGAAATGCAGCCCAAGAAGTCAATGGTATTTGGTT
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----------cacatgagatgtgtagtggagattgcccctcatttacatgagtttggaaggtcccgtaactgcgctgtaacccttttctggtttgtcgagttgtgagcagACAATTTGGTGGAGAATCTATTGGGTGATTTTGAGTTCGAGGTACAAACTCCGTACATTCTGTACCGCAATGCCAATCAGGAAACAAATGCTATCTGGTT
upper sequence: Vv06s0080g00860.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S197_88V6.1 (Physcomitrella patens), 3'ss of exon 4
--------ttgttcttagtactttatttatattgagagggtgtcatttcatctttttcccaaaacataaaacaaatgttaagatgtgccatgttattaaaatgagcagATAATTTGGTGGAGAATCTCTTAGGGGATTTTGAGTATGAAGTTCAGGTTCCATATCTATTATATCGAAATGCAGCCCAAGAAGTCAATGGTATTTGGTT
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tatattagtcagatgtaatgcttggctctgattgaaagg------ttcagttatcatcccttaattgttgataagtgtgcttg-gtggtttgttcgttaa-tgagcagACAATTTGGTGGAGAATCTGTTAGGTGATTTTGAGTATGAAGTGCAAGCTCCGAATCTTCTATACCGCAATGCTAATCAGGAAACGAATTACATCTTGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcccaaaacataaaacaaatgttaagatgtgccatgttattaaaatgagcagATAATTTGGTGGAGAATCTCTTAGGGGATTTTGAGTATGAAGTTCAGGTTCCATATCTATTATATCGAAATGCAGCCCAAGAAGTCAATGGTATTTGGTT
aaaacataaaacaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgttcttagtactttatttatattgagagggtgtcatttcatctttttcccaaaacataaaacaaatgttaagatgtgccatgttattaaaatgagcagATAATTTGGTGGAGAATCTCTTAGGGGATTTTGAGTATGAAGTTCAGGTTCCATATCTATTATATCGAAATGCAGCCCAAGAAGTCAATGGTATTTGGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - -gagggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - aaaacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgtt