Sequence
atgc intronic sequence ATGC exonic sequencegtgagctggcaagttttgctcttaattttgtctgtgcttgttgggagttggaactggttatttatggctgcagattgtgtaatctgattacactgatattgtcatcattaacgcagGTCCTCTCTATAAGCTTATTTTGGACAGGTGCTGTACTCTGCAACACTGTGCATGTTATAGTGTCTGGGACAGTGGTTCTTGTTAGTATCCATGGTGGTA
Basic information
species | Glycine max |
transcript | GLYMA01G21270.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G21270.3 (Glycine max), 3'ss of exon 1
lower sequence: AT1G25500.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgagctggcaagttttgctcttaattttgtctgtgcttgttgggagttggaactggttatttatggctgcagattgtgtaatctgattacactgatattgtcatcattaacgcagGTCCTCTCTATAAGCTTATTTTGGACAGGTGCTGTACTCTGCAACACTGTGCATGTTATAGTGTCTGGGACAGTGGTTCTTGTTAGTATCCATGGTGGTA
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gtgagctggcaagttttgcatttt-tactcacggtttctgttttctgctttaagtgtctgaaagtaaacatgtttagaattcactcaat-cattggaacatataatatatatgcagGTTCTTTCGGTTAGCTTATTCTGGACAGGCGCTGTGCTATGTAACACTGTCCATGTTATAGTTTCTGGGATGGTGTTTCATGTTCTCTTTCACTGTGGTC
upper sequence: GLYMA01G21270.3 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0011g03220.t01 (Vitis vinifera), 3'ss of exon 3
gtgagctggcaagttttgctcttaattttgtctgtgcttgttggg--agttggaactggttatttatggctgcagattgtgtaatctgattacactgatat-tgtcatcattaac----gcagGTCCTCTCTATAAGCTTATTTTGGACAGGTGCTGTACTCTGCAACACTGTGCATGTTATAGTGTCTGGGACAGTGGTTCTTGTTAGTATCCATGGTGGTA
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gtgagctggcaagttttgctcttcattccttctgttgttattgggccaagaagagcaggaaggttccggcagaactttccttagt-tgataacattaataaatgctattgtttgcacatgcagGTGTTCTCGGTGAGCTTATTTTGGACAGGTGCAGTCCTTTGTAATACTGTACATGTTATTGTGTCTGGAATAGTGTTTCTTGTTCTCATCCATGGTGGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatggctgcagattgtgtaatctgattacactgatattgtcatcattaacgcagGTCCTCTCTATAAGCTTATTTTGGACAGGTGCTGTACTCTGCAACACTGTGCATGTTATAGTGTCTGGGACAGTGGTTCTTGTTAGTATCCATGGTGGTA
cattaac putative branch site (score: 2)
atcattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagctggcaagttttgctcttaattttgtctgtgcttgttgggagttggaactggttatttatggctgcagattgtgtaatctgattacactgatattgtcatcattaacgcagGTCCTCTCTATAAGCTTATTTTGGACAGGTGCTGTACTCTGCAACACTGTGCATGTTATAGTGTCTGGGACAGTGGTTCTTGTTAGTATCCATGGTGGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG