Sequence
atgc intronic sequence ATGC exonic sequencegtaggtcactagatcgaattgagaacatcaaatgctaaaaaattgtagaaattaattgttcatcaatcaacttaatcgggaattcatttgttggtttcagATCACTGATGGATGCCAATGGAGGAAGTATGGGCAGAAGATGGCAAAGGGAAATCCATGCCCTCGAGCTTATTATCGATGCACCATGGCTGCAGGTTGTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0059g00880.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G10350.1 (Glycine max), 3'ss of exon 4
gtaggtcacta-gatcgaattgagaacatcaaatgctaaaaaattg---tagaaattaattgttcatcaatcaacttaatcgggaattcatttg-ttggtttcagATCACTGATGGATGCCAATGGAGGAAGTATGGGCAGAAGATGGCAAAGGGAAATCCATGCCCTCGAGCTTATTATCGATGCACCATGGCTGCAGGTTGTC
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gtacgtaattaagagtgcat---gttcttcaattttggaaaaattgttctcatggttaattgttgttcattttagctgatggagaagttttttactttggctcagATTACTGATGGGTGTCAATGGAGAAAGTACGGGCAGAAGATGGCCAAAGGAAACCCATGTCCTAGAGCTTATTATAGATGTACCATGGCTGCTGGTTGCC
upper sequence: Vv12s0059g00880.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G38630.1 (Glycine max), 3'ss of exon 3
gtaggtcactagatcgaattgagaacatcaaatgctaaaaaattgtagaaattaattgttcatcaatcaacttaatcgggaattcatttgttggtttcagATCACTGATGGATGCCAATGGAGGAAGTATGGGCAGAAGATGGCAAAGGGAAATCCATGCCCTCGAGCTTATTATCGATGCACCATGGCTGCAGGTTGTC
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------------gtaagtttttcaatttgttaagttcaatttttgtt----ttgtttttttttctttcaactaatacaaga--ttgtttatcg-tcttagATAACTGATGGGTGTCAATGGCGAAAGTATGGGCAGAAGATGGCCAAAGGAAACCCATGTCCTCGTGCATATTATAGATGTACCATGGCAGCAGGTTGCC
upper sequence: Vv12s0059g00880.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G46420.1 (Glycine max), 3'ss of exon 3
gtaggtcactagatcgaattgagaacatcaaatgct--aaaaaattgtagaaattaattgttcatcaatcaacttaatcgggaa---ttcatttgttggtttcagATCACTGATGGATGCCAATGGAGGAAGTATGGGCAGAAGATGGCAAAGGGAAATCCATGCCCTCGAGCTTATTATCGATGCACCATGGCTGCAGGTTGTC
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-----agagtagtgcatatgcatattctttaattttggaaaaaaacttcatgacaaattgttgttcatttttgctgatggagaagtttttacttgtctcatgcagATTGCTGATGGGTGTCAATGGAGAAAGTATGGGCAGAAAATGGCCAAAGGAAACCCATGTCCTAGAGCTTATTATAGGTGTAGCATGGCATCGGCTTGCC
upper sequence: Vv12s0059g00880.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S246_89V6.1 (Physcomitrella patens), 3'ss of exon 3
----------------------------------gtagg-tcactagatcgaattgagaacatcaaatgctaaaaaattgtagaaattaattgttcatcaatcaacttaatcgggaattcatttgttggtttcagATCACTGATGGATGCCAATGGAGGAAGTATGGGCAGAAGATGGCAAAGGGAAATCCATGCCCTCGAGCTTATTATCGATGCACCATGGCTGCAGGTTGTC
|| ||| || | || | | ||||| || | | || || ||| || | | | | || | ||| ||| |||||||| | || |||||||| ||||| || ||||| ||||||||||| || || ||||| |||||||| || ||||| || ||||| | | || ||||
gtgagaacttggagttctttaaatacttcaacagctactctcatcgcattgcttttgtagcttcaaa-gccagctttaagcagttgatatgtgtaagtccctggattaacatggtgagatatt--ttgttttcagATTAACGACGGATGCCAGTGGAGAAAATATGGTCAGAAGATGGCTAAAGGGAATCCTTGCCCTCGCGCATATTACCGCTGCACTGTTATGTCTGGCTGTC
upper sequence: Vv12s0059g00880.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S47_251V6.1 (Physcomitrella patens), 3'ss of exon 3
------------------------gtaggtcactagatcgaattgaga----acatcaaatgctaaaaaattgtagaaattaattgttcatcaatcaacttaatcgggaat--tcatttgttggtttcagATCACTGATGGATGCCAATGGAGGAAGTATGGGCAGAAGATGGCAAAGGGAAATCCATGCCCTCGAGCTTATTATCGATGCACCATGGCTGCAGGTTGTC
|| ||| | || | | || | || | | || | |||| || ||| | | ||| || | |||| | |||| |||||| ||| |||||||| |||||||| ||||| ||||||||||| || || || || || ||||| || || || ||||||||| | || | || ||||
gtacgttcctgtccttttcatagaacccttctctacacgcttttaaaattcagcaccggattc--agtgcttttcatcgttaaggtttaatcgggtcccatgatctcacatgatgatttatctgttttagATCAATGACGGATGCCAGTGGAGGAAATATGGTCAGAAGATGGCGAAAGGGAACCCCTGTCCTCGTGCATACTACCGATGCACCGTTGCGCCGGGCTGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagaaattaattgttcatcaatcaacttaatcgggaattcatttgttggtttcagATCACTGATGGATGCCAATGGAGGAAGTATGGGCAGAAGATGGCAAAGGGAAATCCATGCCCTCGAGCTTATTATCGATGCACCATGGCTGCAGGTTGTC
attaattgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggtcactagatcgaattgagaacatcaaatgctaaaaaattgtagaaattaattgttcatcaatcaacttaatcgggaattcatttgttggtttcagATCACTGATGGATGCCAATGGAGGAAGTATGGGCAGAAGATGGCAAAGGGAAATCCATGCCCTCGAGCTTATTATCGATGCACCATGGCTGCAGGTTGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG