Sequence
atgc intronic sequence ATGC exonic sequence...ttaattgggtttctctctcacacatatatgactgcatgcatgaattcattttatgccgtacaggtacaagtttttctgaagctctctttgatatttgcagGCTGAGATATCGCTTTGCCGTGTGTACAAGAGAGCTGGAGTCGAAGACCATCCTTCCCTCCCTCGCTGCCTCCCAACGAGGCCATCCTCATCATCAAGGG
Basic information
species | Glycine max |
transcript | GLYMA07G40140.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G40140.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv12s0035g02020.t01 (Vitis vinifera), 3'ss of exon 3
------ttaattgggtttctctctcacacatatatgactgcatgcatgaattcattttatgccgtacaggtacaagtttttctgaagctctc-tttgatatttgcagGCTGAGATATCGCTTTGCCGTGTGTACAAGAGAGCTGGAGTCGAAGACCATCCTTCCCTCCCTCGCTGCCTCCCAACGAGGCCATCCTCATCATCAAGGG
|| || || | ||| | | || | ||| || | ||| ||||| | || | | | | ||| ||||| ||| | | |||||||| ||||||||||| || ||||| ||||||||||| || |||||||| ||||| |||||||| | || || | |||||||| ||||| | |
gcaactacaactgatcctcaatgtcagataaatttcacttcagtc----cctcactttat--cata-aattgcttcctccattgattctctcctttcttcctctcagGCTGAAATATCGCTTTGTCGCGTGTATAAGAGAGCTGGGGTTGAAGACCACCCTTCACTCCCTCGTTCTCTTCCGTCCAGGCCATCATCATCGAGAGGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcattttatgccgtacaggtacaagtttttctgaagctctctttgatatttgcagGCTGAGATATCGCTTTGCCGTGTGTACAAGAGAGCTGGAGTCGAAGACCATCCTTCCCTCCCTCGCTGCCTCCCAACGAGGCCATCCTCATCATCAAGGG
ctttgat putative branch site (score: 5)
tttgatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttaattgggtttctctctcacacatatatgactgcatgcatgaattcattttatgccgtacaggtacaagtttttctgaagctctctttgatatttgcagGCTGAGATATCGCTTTGCCGTGTGTACAAGAGAGCTGGAGTCGAAGACCATCCTTCCCTCCCTCGCTGCCTCCCAACGAGGCCATCCTCATCATCAAGGG
- - - - - - ctctctc
- - - - - - - - - -acacata
- - - - - - - - - - - - - - - - -gcatgca
- - - - - - - - - - - - - - - - - - - - tgaattc
- - - - - - - - - - - - - - - - - - - - - - - - - ttatgcc