Sequence
atgc intronic sequence ATGC exonic sequence...tgacaaaattattgttgttgcagtcacattgatgctcactccatatatctgaagtaaaactgcatctaaccattgaaaatgctttcctttttcttaacagGTTTAGTTCTGTGACTGAACGTTTTTTCATGGAACTCAATACTCGTCGTATTGACACTAGTGTTGCCCGAAGTGAAACACTTAGTATCATTAATGGGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0083g00750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os02g58410.1 (Oryza sativa), 3'ss of exon 5
-tgaca--aaattattgttgt--tgcagtcacattgatgctcactccatatatctgaagtaaaactgcatcta-accattgaaaatgctttcctttttcttaacagGTTTAGTTCTGTGACTGAACGTTTTTTCATGGAACTCAATACTCGTCGTATTGACACTAGTGTTGCCCGAAGTGAAACACTTAGTATCATTAATGGGATG
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gttacttcaaattagggagggaaggaggccatgtaaaagctg---ctgcactgttatatgacctctttgtctatgttacttaaaat--tctgatgattcata-cagGTTTAGTTCTGTGACGGAAAGGTTTTTCATGGAGCTTAATAGTCGGCGTAATGATGCGCCTCTTTCTAGAAGTGATTCACTCAGCATTATTAATGGGATG
upper sequence: Vv14s0083g00750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G06550.1 (Glycine max), 3'ss of exon 6
tgaca-aaattattgt-tgttgcagtcacattgatgc-tcactccatatatctgaagtaaaactgcatc-taaccattgaaaatgctttcctttttcttaacagGTTTAGTTCTGTGACTGAACGTTTTTTCATGGAACTCAATACTCGTCGTATTGACACTAGTGTTGCCCGAAGTGAAACACTTAGTATCATTAATGGGATG
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---catggcttataatacgaagtggaaccattattttattgttttgtgtctcgactgaaaaactgttttgttatttcatggtattcctttcttgttttta-tagGTTTAGTTCTGTTACTGAGCGGTTTTTCATGGAACTCAACACCCGTCGAATTGATACTAGCGCCGCTAGAAGTGAAACGCTTAGTATCATTAATGGGATG
upper sequence: Vv14s0083g00750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA19G04970.1 (Glycine max), 3'ss of exon 2
tgacaaaattattgt-tgttgcagtcacattgatgc-tcactccatatatctgaagtaaaactgcatctaaccattgaaaatgctttcctttttcttaacagGTTTAGTTCTGTGACTGAACGTTTTTTCATGGAACTCAATACTCGTCGTATTGACACTAGTGTTGCCCGAAGTGAAACACTTAGTATCATTAATGGGATG
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tcatggc-ttataatatgaagcggagccattattttattgttttgtgcctcgattgaaaaactgttttgtatttcatggtattcctttcttgttttta-tagGTTTAGTTCTGTTACTGAGCGGTTTTTCATGGAACTCAACACCCGTCGAATTGATACCAGCGCCACTAGAAGTGAAACACTAAGTATCATTAATGGGATG
upper sequence: Vv14s0083g00750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G15680.1 (Arabidopsis thaliana), 3'ss of exon 7
-------------------------------------------------------------------------tgacaaaattattgttgttgcagtcacattgatgctcactcc-atatatctgaagt-aaaactgcatctaaccattgaaaatgctttcctttttcttaacagGTTTAGTTCTGTGACTGAACGTTTTTTCATGGAACTCAATACTCGTCGTATTGACACTAGTGTTGCCCGAAGTGAAACACTTAGTATCATTAATGGGATG
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gtaattcattttgtaagttatcaatcctccaagcatgctaaagtataaatgaaaagaatatgtggacttccattcacaagttta--gttggcagaaaagaatttgtgaaagtgatgatctattttaagccacaaccactcttatccattta------tttaattttcactaacagATTCAGCTCTGTCACGGAGAGGTTTTTCATGGAACTCAATACTCGCCGGATTGATACAAGCGTTGCAAGAAGTGAAACTCTCAGCATCATTAATGGGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatctgaagtaaaactgcatctaaccattgaaaatgctttcctttttcttaacagGTTTAGTTCTGTGACTGAACGTTTTTTCATGGAACTCAATACTCGTCGTATTGACACTAGTGTTGCCCGAAGTGAAACACTTAGTATCATTAATGGGATG
atctaac putative branch site (score: 2)
tgctttcctttttctt putative PPT
tttttcttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgacaaaattattgttgttgcagtcacattgatgctcactccatatatctgaagtaaaactgcatctaaccattgaaaatgctttcctttttcttaacagGTTTAGTTCTGTGACTGAACGTTTTTTCATGGAACTCAATACTCGTCGTATTGACACTAGTGTTGCCCGAAGTGAAACACTTAGTATCATTAATGGGATG
- - aaaatta
- - - - - - - - - -gcagtca
- - - - - - - - - - - - - - - - - ctcactc
- - - - - - - - - - - - - - - - - - - - - - - - - - -gtaaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctaacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgaaaa