Sequence
atgc intronic sequence ATGC exonic sequence...acagtttatatgatttcttgtgagcattggaattttcttgcgaacattcatccaatttatttacgcctctgatgatgatgttttggtgtttcatgtacagGTTTCTGAGTGGGGAAGGATGAGCATGTGCGATGCTGAAAGAAGACTCCTTGCTAATGCATTGCTTGATATCTCCAACGAGTGGTTTATTCTGCTGTCTG
Basic information
species | Glycine max |
transcript | GLYMA17G34930.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G34930.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G090124_T01 (Zea mays), 3'ss of exon 1
acagtttatatgatttcttgtgagcattggaattttcttgcgaacattcatcca-atttatttacgcctctgatgatgatgttttggtgtttcatgta-cagGTTTCTGAGTGGGGAAGGATGAGCATGTGCGATGCTGAAAGAAGACTCCTTGCTAATGCATTGCTTGATATCTCCAACGAGTGGTTTATTCTGCTGTCTG
|| || ||| ||| | | | | | | | | || ||| | |||||| | |||| || | ||| |||||| |||| ||||| ||||| ||||||||||||||| ||| | || ||||| || || ||||| ||||| |||||||| |||||| | || |||| |
--tgtgcttactattatttgatcatctagaagagtcatctctgtctcttattggtattcagatacgccggcatctgtttgatttttgtactgttggtaacagGTTGCTGAATGGGGTCAGATGACCATGTGCGATGCTGAGAGACGTCTACTTGCCAACGCTTTGCTGGATATATCCAACGAATGGTTTGTGCTTGTGTCCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attcatccaatttatttacgcctctgatgatgatgttttggtgtttcatgtacagGTTTCTGAGTGGGGAAGGATGAGCATGTGCGATGCTGAAAGAAGACTCCTTGCTAATGCATTGCTTGATATCTCCAACGAGTGGTTTATTCTGCTGTCTG
ctctgat putative branch site (score: 4)
aatttattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acagtttatatgatttcttgtgagcattggaattttcttgcgaacattcatccaatttatttacgcctctgatgatgatgttttggtgtttcatgtacagGTTTCTGAGTGGGGAAGGATGAGCATGTGCGATGCTGAAAGAAGACTCCTTGCTAATGCATTGCTTGATATCTCCAACGAGTGGTTTATTCTGCTGTCTG
- - - - - - - -tcttgtg
- - - - - - - - - - - - - - - - - ttcttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcctctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gatgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttggtg