Sequence
atgc intronic sequence ATGC exonic sequence...tttgttcttgatgattatccacataaataaatgttaatggacataaaggactttaattttttcatctgttatttaattatgctatgtttctttctattagGGAAATGTAGAAGCAGATAGAGTTTCTTGTTTTGTTCGAATCTTGGGTGACTCAGCGGATCATTTCTGCCAGCAATTGGATAATAGTTCGAGTGGCATCC
Basic information
species | Glycine max |
transcript | GLYMA17G12320.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G12320.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv11s0016g05350.t01 (Vitis vinifera), 3'ss of exon 6
tttgttcttgatgattatccacataaataaatgttaatggacataaaggactttaattttttcatctgttattta-attatgctatgtttctttctatt----agGGAAATGTAGAAGCAGATAGAGTTTCTTGTTTTGTTCGAATCTTGGGTGACTCAGCGGATCATTTCTGCCAGCAATTGGATAATAGTTCGAGTGGCATCC
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--gcaggttgaagaacttgcatgttaggaactaa-aatcaatatgtat--ttttgttttcatccttacttaagaacaaaattgtttactttcttccactctgcagGAAAATGCAGAAGCAGATAGTTTCTGTTGTTTTGTTCGACTTTTGAGTGACTCTGTGGATCACTTTTGTCAACAATTGGATAACAGTTCAGTGGGTATCC
upper sequence: GLYMA17G12320.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ09811 (Selaginella moellendorffii), 3'ss of exon 6
tttgttcttgatgattatccacataaataaat-gttaatggacataaaggactttaattttttcatctgttatttaattatgctatgtttctttctattagGGAAATGTAGAAGCAGATAGAGTTTCTTGTTTTGTTCGAATCTTGGGTGACTCAGCGGATCATTTCTGCCAGCAATTGGATAATAGTTCGAGTGGCATCC
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--------------------------gtaaatcgtttat-----ttctggaattttgttgttttgttcatacttaaaagctgttgatttgtggtagtaaagGTTCACGCGGAGCCAGATGCGTTTTTCTGCTTTGTAGACCTCCTTAGCGATTTCAGAGATCATTTCTGCCAGCAATTGGATAACAGTGCTGTGGGAATTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaggactttaattttttcatctgttatttaattatgctatgtttctttctattagGGAAATGTAGAAGCAGATAGAGTTTCTTGTTTTGTTCGAATCTTGGGTGACTCAGCGGATCATTTCTGCCAGCAATTGGATAATAGTTCGAGTGGCATCC
atttaat putative branch site (score: 4)
ctatgtttctttct putative PPT
tttaattttttcatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgttcttgatgattatccacataaataaatgttaatggacataaaggactttaattttttcatctgttatttaattatgctatgtttctttctattagGGAAATGTAGAAGCAGATAGAGTTTCTTGTTTTGTTCGAATCTTGGGTGACTCAGCGGATCATTTCTGCCAGCAATTGGATAATAGTTCGAGTGGCATCC
- - - cttgatg
- - - - - - - - atccaca
- - - - - - - - - - - - aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctatg