Sequence
atgc intronic sequence ATGC exonic sequence...ggtccgtaaattgcatagtacctgagttgctgaattaccattttctgtttttggattaaaaagcatgcattttgcgtaatctgactaatggaatatgcagGTTAAGGTTGGAATCCAAGGGGCTGAGGAGTTTGGTGATTATGAGGAGTGGTTCAATTACAGGCTATCTAGGGCAGCACCCGAAACATGTGCTGACTTCC
Basic information
species | Glycine max |
transcript | GLYMA03G00450.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G00450.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0058g01450.t01 (Vitis vinifera), 3'ss of exon 1
ggtccgtaaattgcatagtacc--tgagttgctgaattaccattttctgtttttggattaaaaagcatgcattttgcgtaat----ctgact--aatggaata-tgcagGTTAAGGTTGGAATCCAAGGGGCTGAGGAGTTTGGTGATTATGAGGAGTGGTTCAATTACAGGCTATCTAGGGCAGCACCCGAAACATGTGCTGACTTCC
||| || ||| || ||| || || |||| |||| | || | |||| | || || | |||| | ||||||| ||||||||| ||||||||||||| || | |||||||| |||||||||||| ||||||||||| ||||| ||||| || |||||||||||||| ||||
--------ttttggctattactaatgtgtttcttgtttggatccttctaagca-aaattatagtgccagagtttttaattataacttcgattgcaatgtggcactgcagGTGAAGGTTGGAGTCCAAGGGGCTGAAGAATGTGGTGATTTTGAGGAGTGGTTTAATTACAGGCTGTCTAGAGCAGCTCCTGAAACATGTGCTGAGTTCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttttggattaaaaagcatgcattttgcgtaatctgactaatggaatatgcagGTTAAGGTTGGAATCCAAGGGGCTGAGGAGTTTGGTGATTATGAGGAGTGGTTCAATTACAGGCTATCTAGGGCAGCACCCGAAACATGTGCTGACTTCC
gactaat putative branch site (score: 2)
attaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtccgtaaattgcatagtacctgagttgctgaattaccattttctgtttttggattaaaaagcatgcattttgcgtaatctgactaatggaatatgcagGTTAAGGTTGGAATCCAAGGGGCTGAGGAGTTTGGTGATTATGAGGAGTGGTTCAATTACAGGCTATCTAGGGCAGCACCCGAAACATGTGCTGACTTCC
- - - - - ttgcata
- - - - - - - - -gtacctg
- - - - - - - - - - - - - -tgctgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - attaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgacta