Sequence
atgc intronic sequence ATGC exonic sequence...aatctctctgattagtttcctcggtcttttgaaaatattttagatatgcttttatgaaaaaaatgatggggcatctaattgaacttttcctgatatgcagCTATCAGATTCAACGTAGACTTCTGTTAACTGGTACCCCGATACAGAATAGCTTACAGGAATTATGGTCCCTGCTTAATTTTCTTCTTCCGAGCATTTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G00640.1 (Glycine max), 3'ss of exon 9
aatctctctgattagtttcctcggtcttttgaaaatattttagatatgcttttatgaaaaaaatg-atggggcatct--aattgaacttttc---ctgatatgcagCTATCAGATTCAACGTAGACTTCTGTTAACTGGTACCCCGATACAGAATAGCTTACAGGAATTATGGTCCCTGCTTAATTTTCTTCTTCCGAGCATTTTT
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------ttagattaaactgatttccttaatataagtacattagaattggacagaacagaacaacatgtatgacttctacaatttaatttttttcacttttgtgcagCTATCACATTCAACGAAGACTGCTGTTGACTGGTACCCCAATTCAGAACAGTTTGCAGGAATTATGGTCCCTGCTCAATTTTCTCCTTCCAAACATTTTC
upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA20G28120.1 (Glycine max), 3'ss of exon 9
aatctctctgattagtttcctcggtcttttgaaaatattttagatatgctttt---atgaaaaaaatgatggggcatctaattgaact-tttcctgatatgcagCTATCAGATTCAACGTAGACTTCTGTTAACTGGTACCCCGATACAGAATAGCTTACAGGAATTATGGTCCCTGCTTAATTTTCTTCTTCCGAGCATTTTT
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----tgttcaatggttatcacaattcattagaggatagtgtggtgccacacttcaggtggtttagatcctctcttctctaattcttcgatttttttgtgtgcagATATCACATCCAACGAAGACTTCTGTTGACTGGTACCCCAATTCAGAACAGTTTGCAGGAGTTGTGGTCTTTGCTTAATTTTCTCCTTCCAAACATTTTT
upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA10G39630.1 (Glycine max), 3'ss of exon 6
-----aatctctctgattagtttcctcggtcttttgaaaatattttagatatgcttttatgaaaaaaatgatggggcatctaattgaacttttcctgatatgcagCTATCAGATTCAACGTAGACTTCTGTTAACTGGTACCCCGATACAGAATAGCTTACAGGAATTATGGTCCCTGCTTAATTTTCTTCTTCCGAGCATTTTT
|| || ||| || | | | | || | ||| | ||| | || | ||||||| ||| | | ||||| |||| || ||||| ||||||||||| ||||||||||| || ||||| || || ||||| || ||||| ||||||||||||| ||||| | |||||||
aactaaagaaaagtggatagctttcaaaacatat--agcatggccaaagtat---tcaatggtttagatcctctcctctctaattcttaattttcatgtgtgcagATATCGCATCCAACGAAGACTTCTGTTGACTGGTACCCCAATTCAGAACAGTTTGCAGGAGTTGTGGTCTTTGCTTAATTTTCTCCTTCCAAACATTTTT
upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G19310.1 (Arabidopsis thaliana), 3'ss of exon 8
aatctctctgattagtttcctcggtcttttgaaaatattttagatatgcttttatgaaaaaaatgatggggcatctaatt-----gaacttttcctgatatgcagCTATCAGATTCAACGTAGACTTCTGTTAACTGGTACCCCGATACAGAATAGCTTACAGGAATTATGGTCCCTGCTTAATTTTCTTCTTCCGAGCATTTTT
||| | ||||||| | | ||| || | ||| | || || | | || |||| | ||| | | || || ||||| ||||||||| | |||| | || |||||||| |||||||| || || |||||||| || | || ||| ||||||| |||||||||||||||||||| ||| |||
aatggtgttaattagttgttactctgattt----atctcttaaagatactgtcacaaaggaaatttaaagacattttgcttacactaatttgtcctgg-atgcagCTACCGGATTAAGCGCAGACTTCTATTAACTGGAACTCCCATACAGAACAGTCTGCAAGAACTATGGTCGCTGCTTAATTTTCTTCTTCCTCACATCTTT
upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT3G06010.1 (Arabidopsis thaliana), 3'ss of exon 8
aatctctctgattagtttcctcggtcttttgaaaatattttagatatgcttttatgaaaaaaatgatggggcatctaattgaacttttcctgatatgcagCTATCAGATTCAACGTAGACTTCTGTTAACTGGTACCCCGATACAGAATAGCTTACAGGAATTATGGTCCCTGCTTAATTTTCTTCTTCCGAGCATTTTT
| ||| || ||| || |||| | ||| | | | || ||||| ||||| || ||| | | ||||||||||| || |||| ||||||||||| || || || || |||||||||||| | || ||| ||||||| ||||||||||||| ||||| ||| |||
-gtacatct--ctatattcatctgtctgaagtgaatgatgttggctaactattatg---------------tttctaacaaaaatttatccgggatgcagCTATCGTATAAAACGCAGACTTCTGTTGACCGGGACACCCATACAGAATAGCCTTCAAGAACTATGGTCATTGCTTAATTTTCTCCTTCCTCACATCTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgcttttatgaaaaaaatgatggggcatctaattgaacttttcctgatatgcagCTATCAGATTCAACGTAGACTTCTGTTAACTGGTACCCCGATACAGAATAGCTTACAGGAATTATGGTCCCTGCTTAATTTTCTTCTTCCGAGCATTTTT
tcctgat putative branch site (score: 3)
cttttcct CT-rich tract
tttatgaaaaaaatga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatctctctgattagtttcctcggtcttttgaaaatattttagatatgcttttatgaaaaaaatgatggggcatctaattgaacttttcctgatatgcagCTATCAGATTCAACGTAGACTTCTGTTAACTGGTACCCCGATACAGAATAGCTTACAGGAATTATGGTCCCTGCTTAATTTTCTTCTTCCGAGCATTTTT
- tctctct
- - - - - - - - - - - - - - - gaaaata
- - - - - - - - - - - - - - - - - - - - - gatatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatcta