Sequence
atgc intronic sequence ATGC exonic sequence...tttgtttccaaaatctgttgcatgactcacttccttttgttttttattttattttatttaaaattgtattgaagctgagatgcatgtttgttgatttcagTTTCTCACAAAGAACGGAATATATGACTTTTGGAACTGGTTTGATGATCGAACCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g03320.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G154165_T04 (Zea mays), 3'ss of exon 3
-tttgtttccaaaatctgttgcatgactcacttccttttgttttttattttatttt--atttaaaattgtattgaagctgag-atgcatgtttgttgatttcagTTTCTCACAAAGAACGGAATATATGACTTTTGGAACTGGTTTGATGATCGAACCTG
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atttgtgcacaaa---tgttttactagt-gtgtcttaatgtttcaaaagcagttgtgcacatgcacttaaattttgattcattgtaatttcccccttgtctcagTTCTTGTCAAAGAATGGCATATATGAATTCTGGAACTGGTTTGATGACCGAACATG
upper sequence: Vv11s0016g03320.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G08410.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------------------------------tttgtttccaaaatctgttgcatgactcacttccttttgttttttattttattttatttaa---aattgtattgaagctga-----gatgcatgtttgttgatttcagTTTCTCACAAAGAACGGAATATATGACTTTTGGAACTGGTTTGATGATCGAACCTG
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gtgagcactatttggaatggaaccattttgcacctattactacatgatggaggagtttctcatgctggttaatggctatacaaaaatggaatttcttcattgctgtaacatttgtttaattttactctgttaatctcaatgccataaaaattcacaaatgacgctactttgttggtttcagTTTTTGACAAAGAATGGGATATATGATTTCTGGAACTGGTTTGATGATCGAACTTG
upper sequence: Vv11s0016g03320.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G01270.1 (Glycine max), 3'ss of exon 2
----------------------------------------------------------------------------------------------------tttgtttccaaaatctgttgcatgactcacttccttttgtttt-ttattttattttatttaaaattgtattgaagctgagatgcatgtttgttgatttcagTTTCTCACAAAGAACGGAATATATGACTTTTGGAACTGGTTTGATGATCGAACCTG
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gtgagcactatttggaatggaaccattttgcacctattggtcttactattgggatggtggaggagtctcttatgctggttaatggcaatagaaaaatggattcttttttcatggctgtaacat---ttgttcaattttactctgttaatctcaatgccataaaaattcacaaatgatgaca--caactttgttggtttcagTTTTTGACAAAGAATGGGATATACGATTTCTGGAACTGGTTTGATGATCGAACTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttattttatttaaaattgtattgaagctgagatgcatgtttgttgatttcagTTTCTCACAAAGAACGGAATATATGACTTTTGGAACTGGTTTGATGATCGAACCTG
tgttgat putative branch site (score: 4)
attttatttaaaattg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgtttccaaaatctgttgcatgactcacttccttttgttttttattttattttatttaaaattgtattgaagctgagatgcatgtttgttgatttcagTTTCTCACAAAGAACGGAATATATGACTTTTGGAACTGGTTTGATGATCGAACCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - caaaatc
- - - - - - - - - -gcatgac
- - - - - - - - - - - - - -cacttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgaagct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatgtt