Sequence
atgc intronic sequence ATGC exonic sequence...catgtcacatattgcataatttgcattttgttttggatttcgttgctctctattcttaacatctattgtagtttatatactctgtttttctggtttgcagGGGCTGTGTGAATGGAGGGACATTGTTGCCCGTGCAGAGGATGAAAGTACAGGATATGTATTGCCAAATAAATCTGTTCTTGAAATCG
Basic information
species | Glycine max |
transcript | GLYMA17G24130.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G24130.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G35910.1 (Arabidopsis thaliana), 3'ss of exon 9
catgtcacatatt-gcataatttgcattttgttttggattt-cgttgctctctattcttaacatctattgtagtttatatactctgtttttctggtttgcagGGGCTGTGTGAATGGAGGGACATTGTTGCCCGTGCAGAGGATGAAAGTACAGGATATGTATTGCCAAATAAATCTGTTCTTGAAATCG
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-gtatgatgttttcgtgtgatgtgaagaatgatgcatacttacactgctttttcctat-actatttaaagctaacttaaaatttactttctct------tagGGGCTTTGTGAATGGAGGGATTTCATTGCACGTGCGGAGGATGAGAGCACTGGTTATGTATTGCCAAACAAAGTTCTCCTTGAAATAG
upper sequence: GLYMA17G24130.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv08s0056g01320.t01 (Vitis vinifera), 3'ss of exon 8
catgtcacatattgcataatttgcattttgttttggatttcgttgctc-tctattcttaac-atctattgtagttt-atatact---ctgtttttctggtttgcagGGGCTGTGTGAATGGAGGGACATTGTTGCCCGTGCAGAGGATGAAAGTACAGGATATGTATTGCCAAATAAATCTGTTCTTGAAATCG
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------ataaaggacttatttctttttctctttgcaacttccttggttatagacttataattgtctattttgattccatatttttacccagctaaatgaatttcagGGCCTTTTTGAATGGCGAGATGTGGTTGCTCGTGCTGAGGATGAAAGTACTGGTTATATATTGCCCAACAAAACTCTTCTTGAAATCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctctattcttaacatctattgtagtttatatactctgtttttctggtttgcagGGGCTGTGTGAATGGAGGGACATTGTTGCCCGTGCAGAGGATGAAAGTACAGGATATGTATTGCCAAATAAATCTGTTCTTGAAATCG
tcttaac putative branch site (score: 2)
tactctgtttttct putative PPT
tattgtagtttatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catgtcacatattgcataatttgcattttgttttggatttcgttgctctctattcttaacatctattgtagtttatatactctgtttttctggtttgcagGGGCTGTGTGAATGGAGGGACATTGTTGCCCGTGCAGAGGATGAAAGTACAGGATATGTATTGCCAAATAAATCTGTTCTTGAAATCG
catgtca
- - - - - - tgcataa
- - - - - - - - - - -tgcattt
- - - - - - - - - - - - - - tgttttg