Sequence
atgc intronic sequence ATGC exonic sequence...cttatcaagcctttcttgtgaaaatttgattaccttattggtttatgtagctgttcctcttttgtctgttaatagtgcctttttatcttccgttgtacagGCACAAATGCGGGACTTGGCAGGTTTTGTTGAAACAAGACAGCAACTTCTGACTCTGAAACCAAATCATCGGATGAATTGGATAGGATTTGCGGTTGCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g05110.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G03850.1 (Glycine max), 3'ss of exon 4
cttatcaagcctttcttgtgaaa---atttgattaccttattggtttatgtagctgttcctc--ttttgtctgttaatagtgcctttttatcttccgttgtacagGCACAAATGCGGGACTTGGCAGGTTTTGTTGAAACAAGACAGCAACTTCTGACTCTGAAACCAAATCATCGGATGAATTGGATAGGATTTGCGGTTGCTC
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-----ctagtacttttcattaaatatatatgcatatgaatatatcttctgtgatttttttgtgatttaatttgttttactcattatggtaactcttcactcacagGCACAAATGCGAGATTTGTCAGGCTTTGTTGAGACAAGACAACAACTTTTGACTTTGAAGCCAAATCATCGCATGAACTGGATTGGATTTTCTGTAGCCC
upper sequence: Vv09s0002g05110.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G22180.1 (Glycine max), 3'ss of exon 4
cttatcaagcctttcttgtgaaaatttgattaccttattggt-ttatgtagctgttcctcttttg-tctgttaatagtgcctttttatcttccgttgtacagGCACAAATGCGGGACTTGGCAGGTTTTGTTGAAACAAGACAGCAACTTCTGACTCTGAAACCAAATCATCGGATGAATTGGATAGGATTTGCGGTTGCTC
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--cataaatttgaaattctaaattttaactgacctgaatattgtcatgaagatttttgtgatttaatttgtttgactcattatggtaactcttcactcacagGCACAAATGCGAGATTTGTCAGGCTTTGTCGAGACAAGACAACAACTTTTGACTTTGAAGCCAAATCATCGCATGAACTGGATTGGATTTTCTGTAGCCC
upper sequence: Vv09s0002g05110.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G43760.1 (Glycine max), 3'ss of exon 4
cttatcaagcctttct-tgtgaaaatttgattaccttattg--gtttatgtagctgttcc-tcttttgtctgttaatagtgcctttttatcttccgttgtacagGCACAAATGCGGGACTTGGCAGGTTTTGTTGAAACAAGACAGCAACTTCTGACTCTGAAACCAAATCATCGGATGAATTGGATAGGATTTGCGGTTGCTC
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---aagatattttactgtatgactttcaaattacacagtcacagtcagtgaattcctttaatgttttgatccatgtgaatgtgcttttacttctcactgt-cagGCTCAAATGCGAGACTTATCTGGCTTTGTTGAGACACGACAGCAACTTCTGACGCTCAAGTCAAATCATCGCATGAACTGGATTGGCTTTGCTGTTGCTC
upper sequence: Vv09s0002g05110.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G01580.2 (Glycine max), 3'ss of exon 4
-cttatcaagcctttcttgtgaaaatttgattaccttattggtttatgtagctgttcctcttttgtctgttaatagtgcctttttatcttccgttgtacagGCACAAATGCGGGACTTGGCAGGTTTTGTTGAAACAAGACAGCAACTTCTGACTCTGAAACCAAATCATCGGATGAATTGGATAGGATTTGCGGTTGCTC
||||| | || || | | | ||| | ||| | || | ||||| | | || ||||| | | ||| ||||| |||||||| ||||| | || |||||||| ||| |||| ||||||||||| || || |||||||||| ||||| ||||| || ||||| ||||| |
ctgtatcactttcatatttcacaattacagtgagtgaattcttctataatgtatttaatgttttgatccatgtgaatgtgcttttacttctcactgt-cagGCTCAAATGCGAGACTTAACTGGCTTTGTTGAGACACGACAACAACTTCTGACGCTCAAGTCAAATCATCGCATGAACTGGATTGGCTTTGCTGTTGCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtagctgttcctcttttgtctgttaatagtgcctttttatcttccgttgtacagGCACAAATGCGGGACTTGGCAGGTTTTGTTGAAACAAGACAGCAACTTCTGACTCTGAAACCAAATCATCGGATGAATTGGATAGGATTTGCGGTTGCTC
tgttaat putative branch site (score: 3)
cctttttatcttccgt putative PPT
tttttatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttatcaagcctttcttgtgaaaatttgattaccttattggtttatgtagctgttcctcttttgtctgttaatagtgcctttttatcttccgttgtacagGCACAAATGCGGGACTTGGCAGGTTTTGTTGAAACAAGACAGCAACTTCTGACTCTGAAACCAAATCATCGGATGAATTGGATAGGATTTGCGGTTGCTC
- - tcaagcc
- - - - - - - - - -gaaaatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgccttt