Sequence
atgc intronic sequence ATGC exonic sequence...taagttgtaggaaactagcaacatgaattttcctaaaatgataatgtggaatgcatattacctcttagttgtgaatccatttttctaactgcttcttcagGTCAGCCAATATTGGAGTTTTCGTATGCTTAAAATGCTGTGGTGTGCACAGAAGTCTTGGCTCTCAGATATCAAAG
Basic information
species | Glycine max |
transcript | GLYMA08G13070.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G13070.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G21160.3 (Arabidopsis thaliana), 3'ss of exon 3
---------------------------------------------------taagttgtaggaaactagcaacatgaattttcctaaaatgataatgtggaatgcatattacctc-ttagttgtgaatccatt---tttctaactgcttctt-cagGTCAGCCAATATTGGAGTTTTCGTATGCTTAAAATGCTGTGGTGTGCACAGAAGTCTTGGCTCTCAGATATCAAAG
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gtaagttttgccatttttatgttttgttccagtaagcattttatgcttctctaagcagtttgat-tgaatgttatga-tcttgtttccctacttgtgcattttttggtttgtttcgtttttcgtaaacccataaaactcttggttgcttattacagGTCAGCTAATATTGGAGTGTTTATATGCTTAAAATGTTGTGGTGTCCACAGAAGCCTTGGCAGTCATATCTCAAAG
upper sequence: GLYMA08G13070.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G05330.1 (Arabidopsis thaliana), 3'ss of exon 3
taagttgtaggaaactagcaacat--gaattttcctaaaatgataatgtggaatgcatat-tacctcttagttgtgaatccatttttctaactgcttcttcagGTCAGCCAATATTGGAGTTTTCGTATGCTTAAAATGCTGTGGTGTGCACAGAAGTCTTGGCTCTCAGATATCAAAG
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---attatgcgatttgagcttcatctacatgttcttgtgtctttagttatgtatctttgtgtttgttcttatattgaataatcagttagtagcttgttttcagATCAGCAAATATCGGAGTATTCATTTGCTTAAAATGTTGCGGTGTGCACAGGAGCCTCGGCACTCATATTTCAAAG
upper sequence: GLYMA08G13070.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv10s0003g04900.t01 (Vitis vinifera), 3'ss of exon 3
taagttgtaggaaactagcaacatgaattttcctaaaatgataatg------tggaatgcatattacctcttagttgtgaatccatttttcta-actgcttcttcagGTCAGCCAATATTGGAGTTTTCGTATGCTTAAAATGCTGTGGTGTGCACAGAAGTCTTGGCTCTCAGATATCAAAG
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------atttgacatccaca-cacaaatccgtttaatgtagctgtgaattcatgttgttttcttcagcatatgcttatatatgtgtacttgaacaatgcattttcagGTCTGCAAATATTGGAGTCTTTATATGCTTAAAATGTTGTGGTGTGCACAGAAGCCTTGGTACACATATCTCAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtggaatgcatattacctcttagttgtgaatccatttttctaactgcttcttcagGTCAGCCAATATTGGAGTTTTCGTATGCTTAAAATGCTGTGGTGTGCACAGAAGTCTTGGCTCTCAGATATCAAAG
ttctaac putative branch site (score: 1)
ctgcttcttc CT-rich tract
atttttctaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taagttgtaggaaactagcaacatgaattttcctaaaatgataatgtggaatgcatattacctcttagttgtgaatccatttttctaactgcttcttcagGTCAGCCAATATTGGAGTTTTCGTATGCTTAAAATGCTGTGGTGTGCACAGAAGTCTTGGCTCTCAGATATCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - -catgaat
- - - - - - - - - - - - - - - - - - - - - - - - gaatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agttgtg