Sequence
atgc intronic sequence ATGC exonic sequencegtataatctatgatccatattggtagtaactctgcttgaaatgttgtgtgttattgtcttcctgcaatttttgtcactttccttcgttgcaaaataaatgataaatgttgatctcaccttaaagatgatctctttctcagtatgggattcctgataatttatttatttatttttatgtattaagCTATGTTCATCGAGTGGGTCGTACTGCAAGAGCCGGAAGAGAAGGATATGCTGTCACTTTTGTGACTGACAATGACCGATCACTTTTAAAAGCCATT
Basic information
species | Glycine max |
transcript | GLYMA09G15220.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G15220.1 (Glycine max), 3'ss of exon 10
lower sequence: AT4G16630.1 (Arabidopsis thaliana), 3'ss of exon 11
gtataatctatgatccatattggtagtaactctgcttgaaatgttgtgtgttattgtcttcctgcaatttttgtcactttccttcgttgcaaaataaatgataaatgttgatctcaccttaaagatgatctctttctcagtatgggattcctgataatttatttatttatttttatgtattaagCTATGTTCATCGAGTGGGTCGTACTGCAAGAGCCGGAAGAGAAGGATATGCTGTCACTTTTGTGACTGACAATGACCGATCACTTTTAAAAGCCATT
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---------------------------------------------------------------gtaaacaagatatatttcctgtattatgat-taaattaaaaa----gctactagttt-----tgttctctttaactg-atgtgag----gacaatatgttttcctttgattttgca----gTTATGTTCACAGAGTTGGTAGAACAGCTAGGGCTGGAAGGGAAGGTTATGCTGTAACGTTTGTGACTGATAGTGACCGATCCCTTTTGAAAGTCATT
upper sequence: GLYMA09G15220.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 11
gtataatctatgatccatattggtagtaactctgcttgaaatgttgtgtgttattgtcttcctgcaatttttgtcactttccttcgttgcaaaataaatgataaatgttgatctcaccttaaagatgatctctttctcagtatgggattcctgataatttatttatttatttttatgtattaagCTATGTTCATCGAGTGGGTCGTACTGCAAGAGCCGGAAGAGAAGGATATGCTGTCACTTTTGTGACTGACAATGACCGATCACTTTTAAAAGCCATT
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---------------------------------------------------------------------------gctttcagcttatataataagagtgttcaatggtcatact-ctgtgcatttgagtggttctt--atat----ttctt--tatttttttcttttgttctcatttttgcagTTACGTTCATCGTGTTGGTCGTACAGCAAGGGCTGGTAGAGAAGGATATGCTGTTACATTTGTAACTGATAATGATAGATCTCTCTTGAAATCTATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctttctcagtatgggattcctgataatttatttatttatttttatgtattaagCTATGTTCATCGAGTGGGTCGTACTGCAAGAGCCGGAAGAGAAGGATATGCTGTCACTTTTGTGACTGACAATGACCGATCACTTTTAAAAGCCATT
tcctgat putative branch site (score: 3)
tttttat putative PPT
attcctgataatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataatctatgatccatattggtagtaactctgcttgaaatgttgtgtgttattgtcttcctgcaatttttgtcactttccttcgttgcaaaataaatgataaatgttgatctcaccttaaagatgatctctttctcagtatgggattcctgataatttatttatttatttttatgtattaagCTATGTTCATCGAGTGGGTCGTACTGCAAGAGCCGGAAGAGAAGGATATGCTGTCACTTTTGTGACTGACAATGACCGATCACTTTTAAAAGCCATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG