Sequence
atgc intronic sequence ATGC exonic sequence...ttcttctgaagaataactataatggccttattgttaacttgaattataaatgaaatgtctttgtcctttttggtggaactaattacatctttttaattagAAATGGAGATACATATGCGGGTGAATACTTTGCAGACAAGATGCATGGTTTTGGCATATATCGTTTTGCGAATTGCCATCGTTATGAAGGAGCCTGGCAT
Basic information
species | Glycine max |
transcript | GLYMA01G10850.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G10850.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv15s0021g01010.t01 (Vitis vinifera), 3'ss of exon 2
ttcttctgaagaataactataatggc-cttattgttaacttgaatt---ataaatgaaatgtctttgtcctttttggtgg--aactaattacatctttttaattagAAATGGAGATACATATGCGGGTGAATACTTTGCAGACAAGATGCATGGTTTTGGCATATATCGTTTTGCGAATTGCCATCGTTATGAAGGAGCCTGGCAT
| || | || | ||| ||| | || || ||| ||| | || | || ||| ||||| |||| || || || |||||||| || |||||||| || |||||||||||||||||||||||||| ||||| || ||| |||||| ||| | ||||| ||||| ||||||||||||
------taaatgctttctctcatgttgcttctaagaaaaatgcattgccatatgtaaattcaattcaacctgcttggttactaacttatctatatattatatccagAAATGGGGACACATATGCTGGAGAATACTTTGCAGACAAGATGCATGGGTTTGGAATTTATAATTTTGCCAATGGTCATCGGTATGAGGGAGCCTGGCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaatgaaatgtctttgtcctttttggtggaactaattacatctttttaattagAAATGGAGATACATATGCGGGTGAATACTTTGCAGACAAGATGCATGGTTTTGGCATATATCGTTTTGCGAATTGCCATCGTTATGAAGGAGCCTGGCAT
aactaat putative branch site (score: 2)
catcttttt putative PPT
aactaattacatcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcttctgaagaataactataatggccttattgttaacttgaattataaatgaaatgtctttgtcctttttggtggaactaattacatctttttaattagAAATGGAGATACATATGCGGGTGAATACTTTGCAGACAAGATGCATGGTTTTGGCATATATCGTTTTGCGAATTGCCATCGTTATGAAGGAGCCTGGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
-tcttctg
- - - - - gaataac
- - - - - - - - - - - - - - - - - - - - - - - -aaatgaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtggaa