Sequence
atgc intronic sequence ATGC exonic sequence...attaattacacacaacataataactaaatatttatacctgttagagccccttgtaaccttctctattggctgctagaaactgactattgtctttttgcagTATCCTCCTTGTTACAAGGGCATGAGTTTTTGGATTAATGAGTCGTTCACAGAAAACAATTTATGTGAGGTTGTAAGAGGAGTTGCTGGAGATTTTGTCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0027g01200.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os12g34860.1 (Oryza sativa), 3'ss of exon 7
attaattacacacaacataataactaaatatttat-acctgttagagcccct-tgtaaccttctctattggctgctagaaactgactattgtct----ttttgcagTATCCTCCTTGTTACAAGGGCATGAGTTTTTGGATTAATGAGTCGTTCACAGAAAACAATTTATGTGAGGTTGTAAGAGGAGTTGCTGGAGATTTTGTCC
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-----ttgcatcaagcatatccaccaataattttttacatgtttatttttgtatataaattgccct-ctgacttttttcccttttcctttttctgctgttctacagTTTCCACCTTGCTACAAGGATATGAGTTTTTGGATCAATGAAGAGTTTACAGAGAACAATTTATGTGAGGTTGTCAGAGGAATTGCTGGAGATCTTGTAG
upper sequence: Vv19s0027g01200.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AC211349.4_FGT001 (Zea mays), 3'ss of exon 7
--------attaattacacacaacataataactaaata-tttatacctgttagag---------ccccttgtaaccttctctattggctgctagaaactgactattgtctttttgcagTATCCTCCTTGTTACAAGGGCATGAGTTTTTGGATTAATGAGTCGTTCACAGAAAACAATTTATGTGAGGTTGTAAGAGGAGTTGCTGGAGATTTTGTCC
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gtataatctctatgtttctgtctcttatttaatgtacacttcatttttttgagaaaatagtcttcatcttggtgtcgattatgctcactgacagtttatcactattgtttgttt--agTTTCCTCCTTGTTACAAGGATATGAGTTTCTGGATCAATGATGCATTTACAGAGAACAACTTATGTGAGGTTGTCAGAGGAATTGCTGGTGATCTTGTTG
upper sequence: Vv19s0027g01200.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G078756_T01 (Zea mays), 3'ss of exon 7
----attaattacacacaacataataactaaatatttatacctgttagagccccttgtaaccttctctat-tggctgctagaaactgactattgtctttttgc--agTATCCTCCTTGTTACAAGGGCATGAGTTTTTGGATTAATGAGTCGTTCACAGAAAACAATTTATGTGAGGTTGTAAGAGGAGTTGCTGGAGATTTTGTCC
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gtataatctctgtgtttctgtttcttgtttaatctacactattttttgagaaaataatcttcatcttggtgtcaattatgctgactgacagtttattgtttgtttagTTTCCTCCTTGTTACAAAGATATGAGTTTCTGGATCAATGGTGCATTTACAGAAAACAACTTATGTGAGGTTGTCAGAGGAATAGCCGGGGATCTTGTTG
upper sequence: Vv19s0027g01200.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA18G52890.1 (Glycine max), 3'ss of exon 9
-attaattacacacaacataataactaaatatttatacctgttagagccccttgtaaccttctctattggctgctagaaactgactattgtctttttgcagTATCCTCCTTGTTACAAGGGCATGAGTTTTTGGATTAATGAGTCGTTCACAGAAAACAATTTATGTGAGGTTGTAAGAGGAGTTGCTGGAGATTTTGTCC
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tgctattcattttgagtcttgaatcttgaggaatctatatttttatttcagtggacacagtcttgtgagagcattctaatttttgtgtt-tgcctttgcagTATCCTCCTTGTTACAAGGACATGAGTTTCTGGATCAATGAATCATTCACCGAAAACAATCTGTGTGAAGTTGTTAGAGGAATAGCCGGGGATCTTGTCG
upper sequence: Vv19s0027g01200.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA02G10060.1 (Glycine max), 3'ss of exon 7
--attaattacacacaacataataactaaatatttatacct-gttagagccccttgtaaccttctctattggctgctagaaactgactattgtctttttgcagTATCCTCCTTGTTACAAGGGCATGAGTTTTTGGATTAATGAGTCGTTCACAGAAAACAATTTATGTGAGGTTGTAAGAGGAGTTGCTGGAGATTTTGTCC
|| | | | | | | | | | |||||| || | | || | | ||| | | | | | || ||| |||| ||||||||||||||||||||||| ||||||||| ||||| | ||| || || || ||||||||| | ||||| ||||| |||||| | || || ||| ||||
attttgagt-cttgaatcttgaggaatttatatttttatttcagtggacacattcctaaaatcttgtgagaacattctaattttggtgtttgccttt--gcagTATCCTCCTTGTTACAAGGACATGAGTTTCTGGATCAGTGAATCATTTACTGAAAACAATCTGTGTGAAGTTGTTAGAGGAATAGCCGGGGATCTTGTAG
upper sequence: Vv19s0027g01200.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G58140.1 (Arabidopsis thaliana), 3'ss of exon 7
-------attaattacacacaacataataactaaatatttatacctgttagagccccttgtaaccttctctattggctgctagaaactgactattgtctttttgcagTATCCTCCTTGTTACAAGGGCATGAGTTTTTGGATTAATGAGTCGTTCACAGAAAACAATTTATGTGAGGTTGTAAGAGGAGTTGCTGGAGATTTTGTCC
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gtaaaacacttaatgtccatgtctcgtagactaatgaactctagttga-agacttatctgta---ttgtatgtttaacgatggcaaacaa--aattttgttctgcagTATCCTCCTTGTTACAAGGACATCAGTTTCTGGATAAGTGATTTGTTCACAGAGAATAATTTTTGTGAAGTTGTTAGAGGAATTGCTGGGGATCTTGTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gccccttgtaaccttctctattggctgctagaaactgactattgtctttttgcagTATCCTCCTTGTTACAAGGGCATGAGTTTTTGGATTAATGAGTCGTTCACAGAAAACAATTTATGTGAGGTTGTAAGAGGAGTTGCTGGAGATTTTGTCC
aactgac putative branch site (score: 2)
ttgtcttttt putative PPT
tcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attaattacacacaacataataactaaatatttatacctgttagagccccttgtaaccttctctattggctgctagaaactgactattgtctttttgcagTATCCTCCTTGTTACAAGGGCATGAGTTTTTGGATTAATGAGTCGTTCACAGAAAACAATTTATGTGAGGTTGTAAGAGGAGTTGCTGGAGATTTTGTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - -acacaca
- - - - - - - - - - -aactaaa
- - - - - - - - - - - - - - - - - tacctgt
- - - - - - - - - - - - - - - - - - - - - - - ccccttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggctgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaactga