Sequence
atgc intronic sequence ATGC exonic sequencegtttttgttgaaaagaatttatagtttcccatttgttggatatattttgatatgtattctcctgtaatatattttgtttccttgcgtgaatggtttaatgatgcttgtgattgtagAGAAACTATATAAAGGAAGAAACCATTGAACGGATGAGGTTAGACGAAGAGGTTATCTTGGATTTCTTTAGGGAGTACATAAGTGTCTCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GRMZM2G070045_T01 (Zea mays), 3'ss of exon 16
gtttttgttgaaaagaatttatagtttcccatttgttggatatattttgatatgtattctcctg--taatatattttgtttccttgcgtgaatggtttaatgatgc-ttgtgattgtagAGAAACTATATAAAGGAAGAAACCATTGAACGGATGAGGTTAGACGAAGAGGTTATCTTGGATTTCTTTAGGGAGTACATAAGTGTCTCC
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------------------ttatgcctgacagcctga-ggaggtctttcaaaaaccaatctcacaactgctgtctgacatgtcctttcattacttaatatgtgttcccttgcgtctgtagAAAAACTACATAAAAGAAGAAACGATAGAGAGGATGAGGTTAGATGAAGAGGTGCTTATGGATTTCTTCAGGGAACACATCAACGTGACA
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA03G03120.2 (Glycine max), 3'ss of exon 22
gtttt--tgttga-aaagaatttatagtttcccatttgttggatatattttgatatgtattctcctgtaatatattt-tgtttccttg-cgtgaatggtttaatgatgcttgtgattgtagAGAAACTATATAAAGGAAGAAACCATTGAACGGATGAGGTTAGACGAAGAGGTTATCTTGGATTTCTTTAGGGAGTACATAAGTGTCTCC
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gttctgatgtcaataaaacagttgttggcttttatttatgtactaaaatt--gtgcatattttcttctaacagctttgtatttatttgacttaattgttccactgatattt-taattgcagAAAAATTACATTAAGGAAGAAACTATTGAACGGATGAGGCTAGATGAGGAGGTTATCATGGACTTTTTTAGGGAACATATCAGTGTTTCT
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: AT1G71820.1 (Arabidopsis thaliana), 3'ss of exon 22
gtttttgttgaaaagaatttatagtttcccatttgttgg-atatattttgatatgt-attctcctgtaatatattttgtttccttgcgtgaatggtttaatgatgcttgtgattgtagAGAAACTATATAAAGGAAGAAACCATTGAACGGATGAGGTTAGACGAAGAGGTTATCTTGGATTTCTTTAGGGAGTACATAAGTGTCTCC
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----------------------gttcccccatttattctcaagcatttttaccttttatatttcatcagcatacacaaacactgaacctttggggtt----gacgtgtgtaattccagAAAAACTACATCAAGGAAGAAACTATTGAACGGATGAGGCTAGATGAAGAGGTTCTCATGGATTTCTTTAGGGAGTATATAAGTGCATCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgtaatatattttgtttccttgcgtgaatggtttaatgatgcttgtgattgtagAGAAACTATATAAAGGAAGAAACCATTGAACGGATGAGGTTAGACGAAGAGGTTATCTTGGATTTCTTTAGGGAGTACATAAGTGTCTCC
gtttaat putative branch site (score: 4)
atatattttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttttgttgaaaagaatttatagtttcccatttgttggatatattttgatatgtattctcctgtaatatattttgtttccttgcgtgaatggtttaatgatgcttgtgattgtagAGAAACTATATAAAGGAAGAAACCATTGAACGGATGAGGTTAGACGAAGAGGTTATCTTGGATTTCTTTAGGGAGTACATAAGTGTCTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG