Sequence
atgc intronic sequence ATGC exonic sequence...ctatgcctagggcccaaagaaaaaaattatcctagtataagcatgtttgttttcctcaatactttgcttatcatgtcattaagtttgtcttaaaatgcagATGTGTGGGAGGGCAGGTCGTCCACCATTTGAGGATACGGGAATGGCTATAATCATGACAAGACGAGAAACG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0066g00880.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os02g40450.1 (Oryza sativa), 3'ss of exon 12
ctatgcctagggcccaaagaaaaaaattatcctagtataag--catgtt---tgttttcctcaatactttgcttatcatgtcattaagtttgtct---taaaatgcagATGTGTGGGAGGGCAGGTCGTCCACCATTTGAGGATACGGGAATGGCTATAATCATGACAAGACGAGAAACG
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-----attgtagttcagagcattttgtgattcaattataaaattatactatatggtttcctct-tgctt--ctaacaatgcccctccccttatttgggtgatctacagATGTGTGGAAGGGCTGGGCGTCCACCATTTGATGATACTGGAACAATTATAATCATGACAAGAAGAGAGACA
upper sequence: Vv14s0066g00880.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G346278_T02 (Zea mays), 3'ss of exon 8
ctatgcctagggcccaaagaaaaaaattatcctag-tataagcatgtt-tgttttcctcaatactttgcttatcatgtcattaagtttgtcttaaaatgcagATGTGTGGGAGGGCAGGTCGTCCACCATTTGAGGATACGGGAATGGCTATAATCATGACAAGACGAGAAACG
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taacgtaacacatttaataatttcaattttcaaaaatataaaaatactatatgactatcctcttgtttttgagaaagtttcta--tttcgggtgatccacagATGTGTGGGAGGGCTGGACGTCCACCATTCGATGATACTGGAACAATTATAATCATGACAAGAAAAGAAACG
upper sequence: Vv14s0066g00880.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA16G07850.1 (Glycine max), 3'ss of exon 11
-------ctatgcctagggcccaaagaaaaaaattatcctagtataagcatgtttgttttcctcaatactttgcttatcatgtcattaagtttgtcttaaaatgcagATGTGTGGGAGGGCAGGTCGTCCACCATTTGAGGATACGGGAATGGCTATAATCATGACAAGACGAGAAACG
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aatcacactatgtcta---cctaatatagtagg--ggcagggaaaatcaatgcttgacttttcca-tgtaatgtatatcatttgaggtaaaacat-ttatggtacagATGTGTGGAAGGGCAGGCCGACCACCATTTGATGATACAGGCATGGTTATAATCATGACAAGGAGAGAAACG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgttttcctcaatactttgcttatcatgtcattaagtttgtcttaaaatgcagATGTGTGGGAGGGCAGGTCGTCCACCATTTGAGGATACGGGAATGGCTATAATCATGACAAGACGAGAAACG
tttgtctt CT-rich tract
attaagttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctatgcctagggcccaaagaaaaaaattatcctagtataagcatgtttgttttcctcaatactttgcttatcatgtcattaagtttgtcttaaaatgcagATGTGTGGGAGGGCAGGTCGTCCACCATTTGAGGATACGGGAATGGCTATAATCATGACAAGACGAGAAACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
ctatgcc
- - - - - - cccaaag
- - - - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgtc