Sequence
atgc intronic sequence ATGC exonic sequence...ctgttgcgaagtattaaggtatcatgtagtcaatatttctgtatgatctttccgcttgtttgccaatctaaaccttttatgttcttttattttttctcagGTTATGTTGTTGGGAAGGTTACATCATAGAAATCTGGTCAATTTGGTCGGGTATTGTGCAGAAAAAGGACAACACATGCTTGTATATGTCTACATGAGTA
Basic information
species | Glycine max |
transcript | GLYMA13G36140.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G36140.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G54590.2 (Arabidopsis thaliana), 3'ss of exon 2
ctgttgcgaagtattaaggtatcatgtagtcaatatttctgtatgatctttccgcttgtttgccaatctaaaccttttatgttcttttatt--ttttctcagGTTATGTTGTTGGGAAGGTTACATCATAGAAATCTGGTCAATTTGGTCGGGTATTGTGCAGAAAAAGGACAACACATGCTTGTATATGTCTACATGAGTA
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ctataagacaggctacatgaatga-acaatctatatatct-tactctcttagtatctgcttagtttcttgaaaaactcatccactcgccttaatcttttcagGTTATGTTATTGGGAAGGTTGCATCACCGTAACCTAGTGAACTTGATTGGATACTGTGCAGAGAAAGGCCAACACATGCTTATATATGTTTACATGAGTA
upper sequence: GLYMA13G36140.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv19s0014g04960.t01 (Vitis vinifera), 3'ss of exon 2
-----ctgttgcgaagtattaaggtatcatgtagtcaatatttctgtatgatctttccgcttgtttgccaatctaaaccttttatgttcttttattttttctcagGTTATGTTGTTGGGAAGGTTACATCATAGAAATCTGGTCAATTTGGTCGGGTATTGTGCAGAAAAAGGACAACACATGCTTGTATATGTCTACATGAGTA
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catgaatgttcctgcctcttactgcaaaatgtaataaacacttttcc-----ccttatggtagctttgcttgttattacattaccctatttttatttgttctcagGTTCACTTACTGGGAAGGTTACATCATAGAAACCTCGTGAATTTGGTTGGGTATTGTGCCGAAAAGGGCCAGCATATGCTTATATATGTCTACATGAGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctttccgcttgtttgccaatctaaaccttttatgttcttttattttttctcagGTTATGTTGTTGGGAAGGTTACATCATAGAAATCTGGTCAATTTGGTCGGGTATTGTGCAGAAAAAGGACAACACATGCTTGTATATGTCTACATGAGTA
atctaaa putative branch site (score: 3)
ccttttatgttctttt CT-rich tract
taaaccttttatgttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgttgcgaagtattaaggtatcatgtagtcaatatttctgtatgatctttccgcttgtttgccaatctaaaccttttatgttcttttattttttctcagGTTATGTTGTTGGGAAGGTTACATCATAGAAATCTGGTCAATTTGGTCGGGTATTGTGCAGAAAAAGGACAACACATGCTTGTATATGTCTACATGAGTA
ctgttgc
- - - - - - - - - - -tcatgta
- - - - - - - - - - - - - - - - - - - -tgtatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtttgc