Sequence
atgc intronic sequence ATGC exonic sequence...ctggtccctttctttgggaattttgtgattaatacaatagtagtagtgtaggggcatcctaagctatctaaagtgtgttttttttcgtctaattttgcagAATGCTGCAGAGAGGCCTCCTTTCTTCATGCCAAGCTGGACTGTAATGTATGTCTTCAATGCATTCATTGTGGTATGGGTTTTTGTAGTTGGATTTGGGC
Basic information
species | Glycine max |
transcript | GLYMA1403S00200.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA1403S00200.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0007g02030.t01 (Vitis vinifera), 3'ss of exon 8
------ctggtccctttctttgggaattttgtgattaatacaatagtagtagtgtaggggcatcctaagctatctaaagtgtgttttttttcgtctaattttgcagAATGCTGCAGAGAGGCCTCCTTTCTTCATGCCAAGCTGGACTGTAATGTATGTCTTCAATGCATTCATTGTGGTATGGGTTTTTGTAGTTGGATTTGGGC
|| | | | | ||||| | ||| | | || | | ||| || | | | ||||||| ||| || |||||||||||||| |||| ||| ||||||||| | ||||||||||| | ||||||||| |||| | || | ||||| ||||| | || ||||| ||||||
cccttgtatgtacttatatacacatattttataattcacatgatgcattaaatcattcagcaatttattattttt----cccaattttttttgtc--atgttgcagAATGCTGCGGAGAAGCCCCCTTTCTTCCTTCCAAGCTGGACGGCAATGTATGTGGTCAACACCTTTGTGGTGGTGTGGGTGCTAGTGGTTGGGTTTGGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtaggggcatcctaagctatctaaagtgtgttttttttcgtctaattttgcagAATGCTGCAGAGAGGCCTCCTTTCTTCATGCCAAGCTGGACTGTAATGTATGTCTTCAATGCATTCATTGTGGTATGGGTTTTTGTAGTTGGATTTGGGC
gtctaat putative branch site (score: 3)
ttttttttcgtcta CT-rich tract
tgtttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctggtccctttctttgggaattttgtgattaatacaatagtagtagtgtaggggcatcctaagctatctaaagtgtgttttttttcgtctaattttgcagAATGCTGCAGAGAGGCCTCCTTTCTTCATGCCAAGCTGGACTGTAATGTATGTCTTCAATGCATTCATTGTGGTATGGGTTTTTGTAGTTGGATTTGGGC
- - -ccctttc
- - - - - - - - - - ttttgtg
- - - - - - - - - - - - - - - - - - - - - - - -gtagggg