Sequence
atgc intronic sequence ATGC exonic sequence...ataaaaactaaatgagtaattaagccttttcttattttatacatttttacttgattttgaaaaattggtaattttattggattttatgatgtgtgtgcagTTGAGTACATGCGGTTACCAGCGAGTCAGTATTCAGTGTTGGATGCAGAGAGGATTGAGCGGGTAAACGAAAACACGTTTAGGTGTTACGTTTATAGGTT
Basic information
species | Glycine max |
transcript | GLYMA02G24290.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G24290.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G04440.1 (Arabidopsis thaliana), 3'ss of exon 1
ataaaaactaaatgagt-------aattaagccttttcttattttatacatttttacttgattttgaaaaattggtaattttattggattttatgatgtgtgtgcagTTGAGTACATGCGGTTACCAGCGAGTCAGTATTCAGTGTTGGATGCAGAGAGGATTGAGCGGGTAAACGAAAACACGTTTAGGTGTTACGTTTATAGGTT
||| | || | | ||| | | || | | | || | || | || ||| | | ||| |||| | || |||||||||||| ||| | ||||| ||||||||||| || ||| | ||||| |||||||||||| | || | || ||||||||||| ||||| ||||||| |||
gtaacttcagcgcgattctctctgatctaaatttctgtttcctgtggatgattaaatctggatcggattgtttgattttgaatttgctttttgtttatggtttgcagTTGAGTATATGAGCTTACCTGCGAGTCAGTACTCGGTGCTTGATGCGGAGAGGATTGAGAGAGTTGATGATAACACGTTTAGATGTTATGTTTATACGTT
upper sequence: GLYMA02G24290.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv13s0019g05380.t01 (Vitis vinifera), 3'ss of exon 1
ataaaaactaaatgagtaattaagccttttcttattttatacatttttacttgattttgaaaaattggtaattttattggattttatgatgtgtgtgcagTTGAGTACATGCGGTTACCAGCGAGTCAGTATTCAGTGTTGGATGCAGAGAGGATTGAGCGGGTAAACGAAAACACGTTTAGGTGTTACGTTTATAGGTT
||| | | | | | | | | | | | ||||||| ||| | || | || |||| | | ||| | || |||||||||||||||| | || || ||||| ||||| || ||||||||||| ||||||||||| || || | || ||||||||| ||||||| || ||||||||
gtaatgtttgagt---tgcatggattgtattatgtatggttcatttttg---aattctcaa----tcgtggatttacttgttttggt----tggttgcagTTGAGTACATGAGTTTGCCTGCGAGCCAGTACTCTGTGTTGGATGCTGAGAGGATTGAACGTGTGGATGATAACACGTTTCGGTGTTATGTGTATAGGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttacttgattttgaaaaattggtaattttattggattttatgatgtgtgtgcagTTGAGTACATGCGGTTACCAGCGAGTCAGTATTCAGTGTTGGATGCAGAGAGGATTGAGCGGGTAAACGAAAACACGTTTAGGTGTTACGTTTATAGGTT
acttgat putative branch site (score: 5)
attttgaaaaattggt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ataaaaactaaatgagtaattaagccttttcttattttatacatttttacttgattttgaaaaattggtaattttattggattttatgatgtgtgtgcagTTGAGTACATGCGGTTACCAGCGAGTCAGTATTCAGTGTTGGATGCAGAGAGGATTGAGCGGGTAAACGAAAACACGTTTAGGTGTTACGTTTATAGGTT
ataaaaa
- - - - - - - - - - - -gcctttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaaat