Sequence
atgc intronic sequence ATGC exonic sequence...atattgacaataaattttcttcatataacttgtccttcttccttttcaaataaagtgcaactgaaattaatctgagatatatgtttcttgaatgaattagCTCTGGGACTTCTGGTGGGGAGAGAAAATTGATGCCAACCATAGAAGAGGAGCTAGAGAGGAGATCAATGCTTTATAGCCTCTTGATGCCGGTGATGGAT
Basic information
species | Glycine max |
transcript | GLYMA12G32410.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G32410.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G27260.1 (Arabidopsis thaliana), 3'ss of exon 1
--atattgacaataaattttcttcatataacttgtccttcttccttttcaaataaagtgcaactgaaattaatctgagatatatgtttcttgaatgaattagCTCTGGGACTTCTGGTGGGGAGAGAAAATTGATGCCAACCATAGAAGAGGAGCTAGAGAGGAGATCAATGCTTTATAGCCTCTTGATGCCGGTGATGGAT
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gattatttttcttctgggtacccaaaaggttgaaactataataactttctcaaaacttaaagaggctaacaaggttttatatatatgttctgtttgg--cagCTCTGGGACATCTGGTGGGGAGAGGAAGCTAATGCCAACAATCGAAGAGGAGCTAGACAGGAGATCACTCCTCTACAGTCTCTTGATGCCTGTGATGAGC
upper sequence: GLYMA12G32410.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G54510.1 (Arabidopsis thaliana), 3'ss of exon 1
-atattgacaat-aaattttcttcatataacttgtccttcttccttttcaaataaagtgcaactgaaattaatctgagatatatgtttcttgaatgaattagCTCTGGGACTTCTGGTGGGGAGAGAAAATTGATGCCAACCATAGAAGAGGAGCTAGAGAGGAGATCAATGCTTTATAGCCTCTTGATGCCGGTGATGGAT
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tccattcactgttaaaacctttatccaaaaagaaaatttttaatgggtctacttttatctttcatatattcacaaaagaattat-tgatatatgtcaac-agTTCTGGGACTTCTGGTGGAGAGAGGAAACTGATGCCAACAATCGAAGAGGAACTAGACAGAAGATCACTTCTCTACAGTCTCTTGATGCCTGTGATGGAC
upper sequence: GLYMA12G32410.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv12s0134g00230.t01 (Vitis vinifera), 3'ss of exon 1
----atattgacaataaattttcttcatataacttgtccttcttccttttcaaataaagtgcaactgaaattaatctgagatatatgtttcttgaatgaat-tagCTCTGGGACTTCTGGTGGGGAGAGAAAATTGATGCCAACCATAGAAGAGGAGCTAGAGAGGAGATCAATGCTTTATAGCCTCTTGATGCCGGTGATGGAT
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gtgagtgtgtgtggcttacttctttcaga--attgaaatttgatccgttttgagttctgtgtt-ttggaattg---tgagttgt---tttgatgtgtgggtgcagTTCTGGAACTTCTGGCGGAGAGAGAAAACTGATGCCCACCATTGAAGAGGAGCTCGGGAGGAGGTCTTTGCTGTATAGCCTGCTGATGCCTGTGATGAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaataaagtgcaactgaaattaatctgagatatatgtttcttgaatgaattagCTCTGGGACTTCTGGTGGGGAGAGAAAATTGATGCCAACCATAGAAGAGGAGCTAGAGAGGAGATCAATGCTTTATAGCCTCTTGATGCCGGTGATGGAT
aattaat putative branch site (score: 3)
tgaaattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atattgacaataaattttcttcatataacttgtccttcttccttttcaaataaagtgcaactgaaattaatctgagatatatgtttcttgaatgaattagCTCTGGGACTTCTGGTGGGGAGAGAAAATTGATGCCAACCATAGAAGAGGAGCTAGAGAGGAGATCAATGCTTTATAGCCTCTTGATGCCGGTGATGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - -ccttctt
- - - - - - - - - - - - - - - - - - - - - - - -aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gcaactg