Sequence
atgc intronic sequence ATGC exonic sequence...aagtaatattgtcttcaattttgcattgcttttgtttcagatcttcatactttccaataaaaactaacacctttttcttgtttctttctccttggaacagCATGTTGAGGACCATCACCTCTATTCACTTAATTATCTGCACTGGGGTGACCCAAAAGTATGGTATGGAGTAGCTGGAAGCCATGCTCCAGGTCTGGAAG
Basic information
species | Glycine max |
transcript | GLYMA05G30470.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G30470.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G30810.1 (Arabidopsis thaliana), 3'ss of exon 5
aagtaatattgtcttcaattttgcattgcttttgtttcagatcttcatactttccaataaaaactaacacctttttcttgtttctttctccttggaacagCATGTTGAGGACCATCACCTCTATTCACTTAATTATCTGCACTGGGGTGACCCAAAAGTATGGTATGGAGTAGCTGGAAGCCATGCTCCAGGTCTGGAAG
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--gtaagtacactttcactct----ttgattttattataaacatt-----ttttctctaatgtttggatgtttgatgtgatatttctttgtcttgaacagCATGTGGAGGACCATCATTTATATTCACTTAACTATCATCACTTTGGGGAGCCAAAAGTATGGTATGGTGTTCCAGGAAGCAATGCAACCGCTCTCGAGA
upper sequence: GLYMA05G30470.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G34880.1 (Arabidopsis thaliana), 3'ss of exon 6
aagtaatattgtct---tcaattttgcattgcttttgtttcagatcttcatactttccaataaaaactaacacctttttcttgtttctttctccttggaacagCATGTTGAGGACCATCACCTCTATTCACTTAATTATCTGCACTGGGGTGACCCAAAAGTATGGTATGGAGTAGCTGGAAGCCATGCTCCAGGTCTGGAAG
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--gtaagtttacatatatcactatctaatcatttttgtcattttgtttcctatttctcatctaaa---------tgtttgatgttt-----tgattgtaacagCATGTTGAGGACAATCATCTATATTCACTGAACTATCATCACTTTGGCGAGCCAAAAGTATGGTACGGAGTTCCGGGAAGCCATGCAACTGGGCTAGAGA
upper sequence: GLYMA05G30470.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv10s0092g00210.t01 (Vitis vinifera), 3'ss of exon 6
-aagtaatattgtcttcaattttgcattgcttttgtttcagatcttcatactttccaataaaaactaacaccttttt-cttgtttctttctccttggaacagCATGTTGAGGACCATCACCTCTATTCACTTAATTATCTGCACTGGGGTGACCCAAAAGTATGGTATGGAGTAGCTGGAAGCCATGCTCCAGGTCTGGAAG
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gcagcta-gttgtcttgaattgtgaagt-cacccattttcttttctggagctgacctgttgtgcttcctttttttttgtttgtttttttttttttggagcagCATGTTGAGGACCACCACCTATACTCACTAAATTATCTACACTGGGGTGATTCAAAAGTATGGTATGGAGTACCAGGAAGTCATGCTTCAGCATTGGAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catactttccaataaaaactaacacctttttcttgtttctttctccttggaacagCATGTTGAGGACCATCACCTCTATTCACTTAATTATCTGCACTGGGGTGACCCAAAAGTATGGTATGGAGTAGCTGGAAGCCATGCTCCAGGTCTGGAAG
aactaac putative branch site (score: 1)
ctaacacctttttctt CT-rich tract
aataaaaactaaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagtaatattgtcttcaattttgcattgcttttgtttcagatcttcatactttccaataaaaactaacacctttttcttgtttctttctccttggaacagCATGTTGAGGACCATCACCTCTATTCACTTAATTATCTGCACTGGGGTGACCCAAAAGTATGGTATGGAGTAGCTGGAAGCCATGCTCCAGGTCTGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - gtcttca
- - - - - - - - - ttttgca
- - - - - - - - - - - - - -gcttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -aataaaa