Sequence
atgc intronic sequence ATGC exonic sequence...accatataataattactccattttgaggaataataagttcttacccaacattttgaggggggaaatgaattaaacataacattcactttcatacgtgcagCAGGATGAATGGGTGGTGTGCCGGGTATTCAAGAAAAGTGGTAATGCGAAGAAGTACCCTTCTTCCAACCATGCAAGAGCAGTGAATCCATACAGCTTGG
Basic information
species | Glycine max |
transcript | GLYMA06G08440.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G08440.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S159_57V6.1 (Physcomitrella patens), 3'ss of exon 2
accatataataattactccattttgaggaataataagttcttacccaacattttgaggggggaaatgaattaa-acataacattcactttcatacg-tgcagCAGGATGAATGGGTGGTGTGCCGGGTATTCAAGAAAAGTGGTAATGCGAAGAAGTACCCTTCTTCCAACCATGCAAGAGCAGTGAATCCATACAGCTTGG---
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-----agaactattcacgtacatggaaaaatgattttccttcatttggcagcaacactgatttttgctctcagtggattttcttaaccttcgatcgctgctgcagGATGAATGGGTGGTTTGCCGGGTATTTTACAAAAACGGCGGAGGGAGGCACAAGTATGTCTTGCACAGTGGTTTGGACTCTCTCCCAAACAACTCCGATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caacattttgaggggggaaatgaattaaacataacattcactttcatacgtgcagCAGGATGAATGGGTGGTGTGCCGGGTATTCAAGAAAAGTGGTAATGCGAAGAAGTACCCTTCTTCCAACCATGCAAGAGCAGTGAATCCATACAGCTTGG
acataac putative branch site (score: 3)
ctttcat putative PPT
aaatgaattaaacata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
accatataataattactccattttgaggaataataagttcttacccaacattttgaggggggaaatgaattaaacataacattcactttcatacgtgcagCAGGATGAATGGGTGGTGTGCCGGGTATTCAAGAAAAGTGGTAATGCGAAGAAGTACCCTTCTTCCAACCATGCAAGAGCAGTGAATCCATACAGCTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - -ctccatt
- - - - - - - - - - - - - - - - - - - - - -cccaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gggggga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacataac