Sequence
atgc intronic sequence ATGC exonic sequence...gagatctttctctttctgttcattttttagtcaagcaataaaatttctcttattttctcgctacttccctcatgggttcctcgcacacttacattttcagGATTTGTCTGGCCGACCACATCTAAGTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAG
Basic information
species | Glycine max |
transcript | GLYMA10G39370.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G39370.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G22425.1 (Arabidopsis thaliana), 3'ss of exon 4
----gagatctttctctttctgttcattttttagtcaagcaataaaatttctcttattttctcgctacttccctcatgggttcctcgcacacttacatttt-cagGATTTGTCTGGCCGACCACATCTAAGTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAG-------------------------
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gtataaaattgtgaaacttttgcttgcatctgtgtttattc-tctcattactggatatttctctagactttcttgctgcttatagtgaacaaaaacctcttgcagGACTTGTCTGGTCGACCATATCTTGGTTACAACTTGGAGATACCAACTCAGAGAGTTGGAACATATGATACTCAGGTTCTCTCTTTGCTCCTGGAATTGT
upper sequence: GLYMA10G39370.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G22425.2 (Arabidopsis thaliana), 3'ss of exon 4
----gagatctttctctttctgttcattttttagtcaagcaataaaatttctcttattttctcgctacttccctcatgggttcctcgcacacttacatttt-cagGATTTGTCTGGCCGACCACATCTAAGTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAG
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gtataaaattgtgaaacttttgcttgcatctgtgtttattc-tctcattactggatatttctctagactttcttgctgcttatagtgaacaaaaacctcttgcagGACTTGTCTGGTCGACCATATCTTGGTTACAACTTGGAGATACCAACTCAGAGAGTTGGAACATATGATACTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctcttattttctcgctacttccctcatgggttcctcgcacacttacattttcagGATTTGTCTGGCCGACCACATCTAAGTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAG
cacttac putative branch site (score: 2)
cattttc CT-rich tract
ttacatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagatctttctctttctgttcattttttagtcaagcaataaaatttctcttattttctcgctacttccctcatgggttcctcgcacacttacattttcagGATTTGTCTGGCCGACCACATCTAAGTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAG
- - - - - -ctttctg
- - - - - - - - - - - - - - - tcaagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cgcacac