Sequence
atgc intronic sequence ATGC exonic sequence...cattatgcatttagtgtgtccatatgttttcataaatgcttgtttagcgttggtttttgattcctttgggtcgattcactctactgagcattgcttgcagGGGATCTTGGGCAGAGTTATGATTCAAATATGACACTTACGCACTATGAATTGAACCCTGCGAAGGGAAAAACCGTGTTGTTTGTTGGAGACCTTTCATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g00250.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G36360.1 (Glycine max), 3'ss of exon 3
--------cattatgcatttagtgtgtccatatgttttcataaatgcttgtttagcgttggtt--tttgattcctttgggtcgattcactctactgagcattgcttgcagGGGATCTTGGGCAGAGTTATGATTCAAATATGACACTTACGCACTATGAATTGAACCCTGCGAAGGGAAAAACCGTGTTGTTTGTTGGAGACCTTTCATA
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tttatcaccatgaacagttgaacatgcacacataatgctatatgcatatgcccaa-ataggccaatatgtttgctgtaaactggtttg---------gcattatttgcagGGGATCTTGGTCAGAGTTTTGATTCAAATAAGACTCTTTCTCACTATGAATTGAACCCAAGAAAAGGACAAACTGTACTGTTTGTTGGAGACCTCTCTTA
upper sequence: Vv03s0038g00250.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G01000.1 (Glycine max), 3'ss of exon 3
-----------------------------------------------------------------cattatgcatt-tagtgtgtccat--atgttttcataa--atgcttgtttagcgttggttt-----ttgattcctttgggtcgattcactctactgagcattgcttgcagGGGATCTTGGGCAGAGTTATGATTCAAATATGACACTTACGCACTATGAATTGAACCCTGCGAAGGGAAAAACCGTGTTGTTTGTTGGAGACCTTTCATA
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gtaagtgtactattctatcaaagtaattcggagtcactgagggggtctagctcaattgtctttatcaccttgaattgttgagcattcatcattaatttgggaaggaaaaatgctatatgtttgtgtaccaataggccattatgtttcctgtaaactggtttgtctttatttgcagGGGATCTTGGTCAGAGTTTTGATTCAAATAAAACTCTTTCTCACTATGAATTGAACCCAAGAAAAGGACAAACTGTACTATTCGTTGGAGACCTCTCTTA
upper sequence: Vv03s0038g00250.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G16430.2 (Arabidopsis thaliana), 3'ss of exon 3
-------cattatgcat-ttagtgtgtccatatgttttcataaatgcttgtttagcgttggtttttgattcctttgggtcgat-tcactctactgagcattgctt-gcagGGGATCTTGGGCAGAGTTATGATTCAAATATGACACTTACGCACTATGAATTGAACCCTGCGAAGGGAAAAACCGTGTTGTTTGTTGGAGACCTTTCATA
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gtactgtcctgaaacatattgtcatggttttaacttttaacaaaaatgcattttac--tagcctct---cccatggacttgatcttgtgttgcaaatttttgttttgcagGGGATCTTGGGCAGAGTTATGACTCAAACATAACCTTAACACATTATGAGAATAACCCAACAAAAGGGCAAGCGGTTTTGTTCGTCGGCGATATCTCATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcgttggtttttgattcctttgggtcgattcactctactgagcattgcttgcagGGGATCTTGGGCAGAGTTATGATTCAAATATGACACTTACGCACTATGAATTGAACCCTGCGAAGGGAAAAACCGTGTTGTTTGTTGGAGACCTTTCATA
ttttgat putative branch site (score: 4)
tttttgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cattatgcatttagtgtgtccatatgttttcataaatgcttgtttagcgttggtttttgattcctttgggtcgattcactctactgagcattgcttgcagGGGATCTTGGGCAGAGTTATGATTCAAATATGACACTTACGCACTATGAATTGAACCCTGCGAAGGGAAAAACCGTGTTGTTTGTTGGAGACCTTTCATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- -tatgcat
- - - - - - - - - -ccatatg
- - - - - - - - - - - - - - - - - - tgcttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctactga