Sequence
atgc intronic sequence ATGC exonic sequence...gtcaataatgttagtagtaaaatttacatcacaattaagatttcatgctaatcaatttggtaaaatagaacttcaactttctttttcttttgtccttgagATTTTCCAGTCTATCACACTGCTTTTGACTCCTATAACTGGATGACAAACCATGGGGATCCATTGTTTCAACGTCACGTGGCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0319g00060.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G11100.1 (Glycine max), 3'ss of exon 6
gtcaataatgtta-gtagtaaaatttacatcacaattaagatttcatgctaatca---atttggtaaaatagaacttcaactttctttttcttttgtccttgagATTTTCCAGTCTATCACACTGCTTTTGACTCCTATAACTGGATGACAAACCATGGGGATCCATTGTTTCAACGTCACGTGGCTG
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-tcaaaatttttgcatctgaatattcttatatatgccaatgtccattatctgtcatatgtccatggccttcggtgttaaataatgtatttcttttctct---agATTATCCTGTCTATCACACTGCTTTCGATTCCTATAACTGGATGACAAAGTTTGGAGATCCATTCTTTCAGCGCCATGAAGCTG
upper sequence: Vv00s0319g00060.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G36430.1 (Glycine max), 3'ss of exon 5
--gtcaataatgttagtagtaaaatttacatcacaattaagatttcatgctaatcaatttggtaaaatagaac--ttcaactttctttttcttttgtccttgagATTTTCCAGTCTATCACACTGCTTTTGACTCCTATAACTGGATGACAAACCATGGGGATCCATTGTTTCAACGTCACGTGGCTG
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aaattaa-attatttctagctcaatatgccatgtctataatgtcatacatccataggcttgggtatctaatatgatgtaataatctctttcggatttcc---agATTTTCCCGTCTATCACACTGCGTTCGACTCCTATAACTGGATGGCAGAGTATGGAGATCCATTCTTCCACCGCCATGTTGCTG
upper sequence: Vv00s0319g00060.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G39080.1 (Glycine max), 3'ss of exon 5
-------------------------------------------------------------------gtcaataatgttagtagtaaaatttacatcacaattaagatttcatgc--taatcaatttgg-----taaaa--tagaacttcaactttctttttcttttgtccttgagATTTTCCAGTCTATCACACTGCTTTTGACTCCTATAACTGGATGACAAACCATGGGGATCCATTGTTTCAACGTCACGTGGCTG
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gtatgtatctcatgattcactgtccagtcccagattctttaggcatatattgttttgtaatacaaaaattaa-attatttctagctcaatatgccatgtctataatatgtcatatatccatggacttggatttctaataattagtgatgtaataataatatctttcctatttccagATTTTCCCGTCTATCACACTGCATTCGACTCCTATAACTGGATGGCAGAGTATGGAGATCCATTCTTCCACCGCCATGTTGCTG
upper sequence: Vv00s0319g00060.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA12G23220.1 (Glycine max), 3'ss of exon 6
-gtcaataatgttagtagtaaa--atttacatcacaattaagat-ttcatgctaatcaatttggtaaaatagaacttcaactttctttttcttttgtccttgagATTTTCCAGTCTATCACACTGCTTTTGACTCCTATAACTGGATGACAAACCATGGGGATCCATTGTTTCAACGTCACGTGGCTG
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cctcaata-tgcttctaatatgccatgtctataatgtgtcatatatccataggcttgaatttctaataatagtggtgtaataatctctttccgatttcc---agATTTCCCCATCTATCACACTGCGTTCGACTCCTATAACTGGATGGCATAGTATTGAGATCCATTCTTCCACCGCCATGTTACTG
upper sequence: Vv00s0319g00060.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G54720.1 (Arabidopsis thaliana), 3'ss of exon 5
gtcaat---aatgttagtagtaaaat-ttacatcacaat-taagatttcatgctaatcaat-ttggtaaaatagaacttcaactttctttttcttttgtccttgagATTTTCCAGTCTATCACACTGCTTTTGACTCCTATAACTGGATGACAAACCATGGGGATCCATTGTTTCAACGTCACGTGGCTG
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gtcaatgagaacatgattccttaagtcttgcaaaatattctataatgtgatgtt--ttaatgcaagtaataccaataatgtatgttgtttatccttt--ctttcagATTATCCTGTCTATCACACTGCATTTGACTCCTATGATTGGATGATCCACAACGCAGATCCATTGTTTCACCGTCATGTTGCTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctaatcaatttggtaaaatagaacttcaactttctttttcttttgtccttgagATTTTCCAGTCTATCACACTGCTTTTGACTCCTATAACTGGATGACAAACCATGGGGATCCATTGTTTCAACGTCACGTGGCTG
tgctaat putative branch site (score: 2)
cttcaactttcttttt putative PPT
aatttggtaaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcaataatgttagtagtaaaatttacatcacaattaagatttcatgctaatcaatttggtaaaatagaacttcaactttctttttcttttgtccttgagATTTTCCAGTCTATCACACTGCTTTTGACTCCTATAACTGGATGACAAACCATGGGGATCCATTGTTTCAACGTCACGTGGCTG
- - - - - - - -agtaaaa
- - - - - - - - - - - - - catcaca
- - - - - - - - - - - - - - - - - - - - - tcatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggtaaaa