Sequence
atgc intronic sequence ATGC exonic sequence...acaactcattcatgaaaattagacacaattatattatctgtatcccatttcctttcaaagatccccatatactaaatatgttgaaattctttgtgtatagGATCCAAAGCATGGGCACTGGTGGCTGGAATTCGGGTCAGGACTACTAGTAGGGTATTGGCCAGCAAACATGTTCAGTCACTTGAGGAACCATGCAAGCA
Basic information
species | Glycine max |
transcript | GLYMA06G19020.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G19020.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G50150.1 (Arabidopsis thaliana), 3'ss of exon 6
acaactcattcatgaaaattagacacaattatattatctgta-tcccatttcctttcaaagatccccata-tactaaatatgttgaaattctttgtg------tatagGATCCAAAGCATGGGCACTGGTGGCTGGAATTCGGGTCAGGACTACTAGTAGGGTATTGGCCAGCAAACATGTTCAGTCACTTGAGGAACCATGCAAGCA
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-------gatcgtttgacttacaga-aatcatctatactatacttttattttctcttgaagctaaatgtgctattgcctatattgtggtcattttaaacttaatgtagGATCCAAAACATGGGCACTGGTGGCTTGAACTAGGGAATGGACTTCTTGTGGGATACTGGCCAGCTTTCTTGTTCAGTCACTTGAGGAGTCATGCAAGTA
upper sequence: GLYMA06G19020.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv17s0000g08870.t01 (Vitis vinifera), 3'ss of exon 6
acaactcattcatgaaaattaga-----cacaattatattatctgtatcccat-ttcctttcaaagatccccatatactaaatatgttgaaattctttgtgtatagGATCCAAAGCATGGGCACTGGTGGCTGGAATTCGGGTCAGGACTACTAGTAGGGTATTGGCCAGCAAACATGTTCAGTCACTTGAGGAACCATGCAAGCA
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--aatgcagtaaagcacaataaaatctccaagacctaagtgt-tgtacaatatgttgctatgctagaaactaatggag-aaacatctttttattgt--gcgtgtagGATCCAAAGCATGGACACTGGTGGCTTGAGTACGGGTCTGGACTATTGGTTGGGTACTGGCCATCGTTCTTGTTTAGCCACTTGGGGAATCATGCAAACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catttcctttcaaagatccccatatactaaatatgttgaaattctttgtgtatagGATCCAAAGCATGGGCACTGGTGGCTGGAATTCGGGTCAGGACTACTAGTAGGGTATTGGCCAGCAAACATGTTCAGTCACTTGAGGAACCATGCAAGCA
tactaaa putative branch site (score: 1)
ttctttgt putative PPT
atatactaaatatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acaactcattcatgaaaattagacacaattatattatctgtatcccatttcctttcaaagatccccatatactaaatatgttgaaattctttgtgtatagGATCCAAAGCATGGGCACTGGTGGCTGGAATTCGGGTCAGGACTACTAGTAGGGTATTGGCCAGCAAACATGTTCAGTCACTTGAGGAACCATGCAAGCA
- - - cattcat
- - - - - - - - - - agacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccccata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgaa