Sequence
atgc intronic sequence ATGC exonic sequence...tataatttaactttatgatgggaaatgaaatgggtatatagtatttttatttttattctttttctttgatttttttttttgtttgcatttgattttgaagCCAAAGCATCGTTTGGGGCGGAAGAGTGGTACTTTTTCAGCCCGAGAGAAAGGAAGTACCCGAATGGCGCGAGGCCAAACAGGGCTGCAACTTCAGGGTA
Basic information
species | Glycine max |
transcript | GLYMA12G22790.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G22790.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S259_67V6.1 (Physcomitrella patens), 3'ss of exon 1
tataatttaactttatgatgggaaatgaaatgggtatatagtattttt-----atttttattctttttctttgatttttttttttgtttgcatttgattttgaagCCAAAGCATCGTTTGGGGCGGAAGAGTGGTACTTTTTCAGCCCGAGAGAAAGGAAGTACCCGAATGGCGCGAGGCCAAACAGGGCTGCAACTTCAGGGTA
| || || || | | | | || | | | | | | || | | | || | | || | | | |||||||| | || ||| || ||||| | | ||||||||| ||||||||||| ||||| ||||| ||||| ||||| || | || ||| | |||||| |||| || ||
--ttgttgaaacatagca-gagcggcctactgattttccgggaatctgtaaaagttcaagagcgtataaattaaaagaatcgattctctac-tttgattt-gcagGCAAGGCTATTTTTGGAGAAGGAGAGTGGTATTTTTTCAGCCCAAGAGACAGGAAATACCCAAATGGAGCTCGCCCTAACCGAGCTGCAGCTTCCGGATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatttttattctttttctttgatttttttttttgtttgcatttgattttgaagCCAAAGCATCGTTTGGGGCGGAAGAGTGGTACTTTTTCAGCCCGAGAGAAAGGAAGTACCCGAATGGCGCGAGGCCAAACAGGGCTGCAACTTCAGGGTA
atttgat putative branch site (score: 5)
ttttattctttttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tataatttaactttatgatgggaaatgaaatgggtatatagtatttttatttttattctttttctttgatttttttttttgtttgcatttgattttgaagCCAAAGCATCGTTTGGGGCGGAAGAGTGGTACTTTTTCAGCCCGAGAGAAAGGAAGTACCCGAATGGCGCGAGGCCAAACAGGGCTGCAACTTCAGGGTA
- - - - - - - -tgatggg
- - - - - - - - - - - aaatgaaa