Sequence
atgc intronic sequence ATGC exonic sequence...taacatgaatcaagcttggacatgccatcttatcaagctttattgagtaatgtcctaataattaaggtggtgggctgatgaaattttgtcattttttcagCTCTCTTTCGATCTCCTAGAGTCTTGGCTCGCAAAAAACCCTGACGTGCCTGGATTCAAAAGCGAAGGCAAATCCATATTCCGTGAGCTTGCTCTCTTCC
Basic information
species | Glycine max |
transcript | GLYMA01G40400.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G40400.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv00s0840g00010.t01 (Vitis vinifera), 3'ss of exon 1
taacatgaatcaagcttggacatgccatcttatcaagctttattgagtaatgtcctaataattaaggtggtgggctgatgaaattttgtcatttttt-cagCTCTCTTTCGATCTCCTAGAGTCTTGGCTCGCAAAAAACCCTGACGTGCCTGGATTCAAAAGCGAAGGCAAATCCATATTCCGTGAGCTTGCTCTCTTCC
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--------gttaga---agattttccttttaaaaaaactacaatctttgatttcttgccaaa-aatgcagtcccttattttcatcttattgcgtcatgcagCTCTCTTTCGATCTTCTGGAGTCCTGGCTCGCACAAAACCCAGATGCAGCTGGGTTCAAGCGAGATGGAGAATCGATATTCAGAGAGCTAGCTCTCTTCC
upper sequence: GLYMA01G40400.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv00s1437g00010.t01 (Vitis vinifera), 3'ss of exon 1
taacatgaatcaagcttggacatgccatcttatcaagctttattgagtaatgtcctaataattaaggtggtgggctgatgaaattttgtcatttttt-cagCTCTCTTTCGATCTCCTAGAGTCTTGGCTCGCAAAAAACCCTGACGTGCCTGGATTCAAAAGCGAAGGCAAATCCATATTCCGTGAGCTTGCTCTCTTCC
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--------gttaga---agattttccttttaaaaaaaatacaatctttgatttcttgccaaa-aatgcagtcccttattttcatcttattgcgtcatgcagCTCTCTTTCGATCTTCTGGAGTCCTGGCTCGCACAAAACCCAGATGCAGCTGGGTTCAAGCGAGATGGAGAATCGATATTCAGAGAGCTAGCTCTCTTCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtaatgtcctaataattaaggtggtgggctgatgaaattttgtcattttttcagCTCTCTTTCGATCTCCTAGAGTCTTGGCTCGCAAAAAACCCTGACGTGCCTGGATTCAAAAGCGAAGGCAAATCCATATTCCGTGAGCTTGCTCTCTTCC
ttttgtcattttttc CT-rich tract
aaattttgtcattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taacatgaatcaagcttggacatgccatcttatcaagctttattgagtaatgtcctaataattaaggtggtgggctgatgaaattttgtcattttttcagCTCTCTTTCGATCTCCTAGAGTCTTGGCTCGCAAAAAACCCTGACGTGCCTGGATTCAAAAGCGAAGGCAAATCCATATTCCGTGAGCTTGCTCTCTTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- -catgaat
- - - - - - -gcttgga
- - - - - - - - - - catgcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgatga