Sequence
atgc intronic sequence ATGC exonic sequencegtaaaagcttgtggctatgttgccaccctgtaaatatacttgactcgctgtctatcgttttttgaaatgtgtaagtatgtttatttttaaatgtatttcaagtttgaaactcttgatttgtgtttatgtttcaagGTATGTGGAAGTGAATATGGATTCTGCTGCTATTGTCTGGCCATTATTTAACAGCCTGCAGGCATTTTGGCCTGGCCTTCAG
Basic information
species | Glycine max |
transcript | GLYMA10G32320.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G32320.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os01g56670.3 (Oryza sativa), 3'ss of exon 10
gtaaaagcttgtggctatgttgccaccctgtaaatatacttgactcgctgtctatcgttttttgaaatgtgtaagtatgtttatttttaaatgtatttcaagtttgaaactcttgatttgtgtttatgtttcaagGTATGTGGAAGTGAATATGGATTCTGCTGCTATTGTCTGGCCATTATTTAACAGCCTGCAGGCATTTTGGCCTGGCCTTCAG
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---------tg-ggtgatgattgcatagtttaattgtacatgttacact----agaggttcttcagctgc---------tttcttgtcaagt----ttcaaata-aaaacctacaattt-------taattccagGTATGTGGAGGTAAATATGAATTCTGGTGCTACTGTTTGGCCACTATTCAACAGTCTCCAGGCATTCTGGCCAGGACTTCAG
upper sequence: GLYMA10G32320.1 (Glycine max), 3'ss of exon 9
lower sequence: AT5G43710.1 (Arabidopsis thaliana), 3'ss of exon 10
gtaaaagcttgtggctatgttgccaccctgtaaatatacttgactcgctgtctatcgttttttgaaatgtgtaagtatgtttatttttaaatgtatttcaagtttgaaactcttgatttgtgtttatgtttca-agGTATGTGGAAGTGAATATGGATTCTGCTGCTATTGTCTGGCCATTATTTAACAGCCTGCAGGCATTTTGGCCTGGCCTTCAG
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------------------------------------------gtaagctttctgt-atcttgtatgatagagaaacaagaa------caaacaattcctttgtttggacttactgttttttctagttttgtcgtagGTATGTAGAAGTCAATATGGATTCCGCAGCTATTGTCTGGCCAGTATTTAACAGCCTTCAAGCTTTCTGGCCAGGACTTCAG
upper sequence: GLYMA10G32320.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv05s0020g04650.t01 (Vitis vinifera), 3'ss of exon 11
gtaaaagcttgtggctatgttgccaccctgtaaatatacttgactcgctgtctatcgttttttgaaatgtg--taagtatgtttatttttaaatgtatttcaagtttga---aactcttgatttgtgtttatgtttcaagGTATGTGGAAGTGAATATGGATTCTGCTGCTATTGTCTGGCCATTATTTAACAGCCTGCAGGCATTTTGGCCTGGCCTTCAG
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gtaaatgattgtggctatcatgtgctagtatatgaatctacaattccttgactttgttttattcatttattatttattagaattggttttaacccgatcacaaattaggttgggggtttaatttttatgtatctgt--agGTATGTGGAGGTAAACATGGATTCTGCTGCTATTGTTTGGCCATTATTTAACAGTTTGCAAGCATTCTGGCCAGGCCTTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatttttaaatgtatttcaagtttgaaactcttgatttgtgtttatgtttcaagGTATGTGGAAGTGAATATGGATTCTGCTGCTATTGTCTGGCCATTATTTAACAGCCTGCAGGCATTTTGGCCTGGCCTTCAG
tcttgat putative branch site (score: 4)
tttaaatgtatttcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaagcttgtggctatgttgccaccctgtaaatatacttgactcgctgtctatcgttttttgaaatgtgtaagtatgtttatttttaaatgtatttcaagtttgaaactcttgatttgtgtttatgtttcaagGTATGTGGAAGTGAATATGGATTCTGCTGCTATTGTCTGGCCATTATTTAACAGCCTGCAGGCATTTTGGCCTGGCCTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG