Sequence
atgc intronic sequence ATGC exonic sequence...aagtgtacctctctcctcattctttcctgttatatatctgtacaaaatgttttgtgtcacatctataactatgtgcactgcttgcatgcatttgttgtagCTTCTTGGGAGGAGTAGTGGGTTTCAAGTTGCATCAACTCATCGGCCATGTACCAAAGGGCTTTGGTTGTGGAGCACACCCTTAAAGAGAACTGCTCTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G031053_T01 (Zea mays), 3'ss of exon 1
aagtgtacctct-ctcctcattctttcctgttatatatctgta-caaaatgttttgtgtcacatctataactatgtgcactgcttgcatgcatttgttgtagCTTCTTGGGAGGAGTAGTGGGTTTCAAGTTGCATCAACTCATCGGCCATGTACCAAAGGGCTTTGGTTGTGGAGCACACCCTTAAAGAGAACTGCTCTTG
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--tcatactcatactcagctttaatataagttgattttttatagtgcattattttttgttaatcctctgcatcagttgataaaatccatcctctatatgcagCTTCTTGGGCGAAGCGGCGGGTTTCAAGTGGCTTCAACACATCGGCCTTGCACCAAAGGACTTTGGATGTGGAGTGCGCCTTTGAAGAGAACTGGTCTGG
upper sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G24260.1 (Glycine max), 3'ss of exon 1
aagtgtacctctctcctcattctttcctgttatatatctgtacaaa--atgttttgtgtcacatctataactatgtgcactg---cttgcatgcatt-tgttgtagCTTCTTGGGAGGAGTAGTGGGTTTCAAGTTGCATCAACTCATCGGCCATGTACCAAAGGGCTTTGGTTGTGGAGCACACCCTTAAAGAGAACTGCTCTTG
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------tccgctttctgcaagtattgaaatacaattactaaataagtgagactttgttaaattgttattataatctgtattgtgtcttatgttttttgtatttcagCTCTTAGGAAAGAGTAGTGGATTTCAAGTAGCATCAACACATCGGCCTTGTACCAAAGGGCTTTGGTTGTGGAGTGCACCTTTGAAGAAGACTGCTCTTG
upper sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G32290.2 (Glycine max), 3'ss of exon 1
--aagtgtacctctctcctcattctttcctgttatatatctgtacaaaatgttttgtgtcacatctataactatgtgcactgcttgcatgcatttgttgtagCTTCTTGGGAGGAGTAGTGGGTTTCAAGTTGCATCAACTCATCGGCCATGTACCAAAGGGCTTTGGTTGTGGAGCACACCCTTAAAGAGAACTGCTCTTG
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tttccactgactttctgctggtgttgaaatacaattactaaataagtgagactttgttagattgttattataatctgtattg--tggctttttgcatttcagCTCTTAGGAAAGAGTAGCGGATTTCAAGTAGCCTCAACACATCGGCCATGCACCAAAGGGCTTTGGTTGTGGAGTGCACCTTTGAAGAAGACCGCTCTTG
upper sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G30780.1 (Glycine max), 3'ss of exon 1
aagtgtacctctctcctcattctttcctgttatatatctgtacaaaatgttttgtgtcacat----ctataactatgtgcactgcttgcatgcatttgttgtagCTTCTTGGGAGGAGTAGTGGGTTTCAAGTTGCATCAACTCATCGGCCATGTACCAAAGGGCTTTGGTTGTGGAGCACACCCTTAAAGAGAACTGCTCTTG
||| | | | | | | | || || | | || | ||| || | ||| | | | ||| ||| | | | || ||| ||||| | ||||||| |||||| ||||| || |||||||| ||||| |||||||||||||| || ||||||||||| |||| || ||||| ||||| ||||
-agtct-cattttgagtaactactttgtgc-acagat-tacttaaacagtctggtgataaaaagagttgagactgtgttctcattaccctaatccttattgcagCTTTTGGGGAGGACTAGTGGATTTCAGGTAGCATCAACACATCGACCATGTACCAAAGGACTATGGTTGTGGAGTGCACCGTTGAAGAGGACTGCCCTTG
upper sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G46070.1 (Arabidopsis thaliana), 3'ss of exon 1
aagtgtacctctctcctcattctttcctgttatatatctgtacaaaatgttttgtg---tcacatctataactatgtgcactgcttgcatgcatttgt-------------tgtagCTTCTTGGGAGGAGTAGTGGGTTTCAAGTTGCATCAACTCATCGGCCATGTACCAAAGGGCTTTGGTTGTGGAGCACACCCTTAAAGAGAACTGCTCTTG
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----------------ttatgtttgtttgatttggttctgtgtacattgttttgaggtctagggtttatgtttctgtgtgtttcttaaattgttttgtggtgttgtgcgtttgtagCTTCTTGGACGCAGTAATGGGTTTCAAGTAGCATCAACACACAAGCCGTGTACCAAGGGGCTTTGGTTGTGGAGTTCTCCTATAAAAAGAACAGCTCTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgttttgtgtcacatctataactatgtgcactgcttgcatgcatttgttgtagCTTCTTGGGAGGAGTAGTGGGTTTCAAGTTGCATCAACTCATCGGCCATGTACCAAAGGGCTTTGGTTGTGGAGCACACCCTTAAAGAGAACTGCTCTTG
ctataac putative branch site (score: 3)
tataactat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagtgtacctctctcctcattctttcctgttatatatctgtacaaaatgttttgtgtcacatctataactatgtgcactgcttgcatgcatttgttgtagCTTCTTGGGAGGAGTAGTGGGTTTCAAGTTGCATCAACTCATCGGCCATGTACCAAAGGGCTTTGGTTGTGGAGCACACCCTTAAAGAGAACTGCTCTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - ctctctc
- - - - - - - -ctcattc
- - - - - - - - - - - -ttcctgt
- - - - - - - - - - - - - - - - - - - - -acaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - actgctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatgca