Sequence
atgc intronic sequence ATGC exonic sequence...ttaatgtatgcctcccaatttattaattacatgtagctttctagcatctttttttttattctttctttctttgcataattacataagcatatatttccagGAATTTGAGAGAGATGTTCAAATTAGATGCTGCAGAGTACATGATGTCCATTTGTGGTGATTCTGGTCTAAGGGACATATCTTCACCTGGAAAAAGTGGC
Basic information
species | Glycine max |
transcript | GLYMA05G30320.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G30320.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g49510.1 (Oryza sativa), 3'ss of exon 4
------ttaatgtatgcctcccaatttattaattacatgtagctttctagcatctttttttttattctttctttctttgcataattacataagcatatatttccagGAATTTGAGAGAGATGTTCAAATTAGATGCTGCAGAGTACATGATGTCCATTTGTGGTGATTCTGGTCTAAGGGACATATCTTCACCTGGAAAAAGTGGC
|| | |||| || | || | || || | |||| || | || || || | || | || | ||||| || | |||||||| | |||| ||||| | | ||||||||||| ||||||||||| || ||||||| | | |||||| ||| | ||||||||||| |||||||||
acattgtttagaaatgcatc--gacttgaaagttcgatcaa---ttctgtcaattgttcttgtaattttctccatatcttattagctcataatt-tactctaccagGAATCTTCGAGAAATGTTTCATATCGATGCTGCAGATTACATGATGTCTATATGTGGTGGTGATAGTCTAAAGGAGCTTTCTTCACCTGGGAAAAGTGGC
upper sequence: GLYMA05G30320.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv12s0034g01790.t01 (Vitis vinifera), 3'ss of exon 5
ttaatgtatgcctcccaatttattaattacat-gtagctttctagcatctttttttttattctttctttctttgcataattacataagcatatatttccagGAATTTGAGAGAGATGTTCAAATTAGATGCTGCAGAGTACATGATGTCCATTTGTGGTGATTCTGGTCTAAGGGACATATCTTCACCTGGAAAAAGTGGC
| ||| || || | | | | || | | || |||| || ||| |||||||| | ||| | ||| | |||||| ||||| |||||||| || || ||||||||||| |||||||||||||| || |||||| |||||| ||||| | |||| || || |||||||||
-agagttataacttcctaataactttttgtttcattcacaccttattcacttttaaacatgtgaccttaatttgcatatattcatggaattttatcttcagGAACTTGAGGGAGATGTTTAAGTTGGATGCTGCAGATTACATGATGTCCATCTGCGGTGATGATGGTCTCAGGGAGCTTCCTTCTCCAGGGAAAAGTGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctttttttttattctttctttctttgcataattacataagcatatatttccagGAATTTGAGAGAGATGTTCAAATTAGATGCTGCAGAGTACATGATGTCCATTTGTGGTGATTCTGGTCTAAGGGACATATCTTCACCTGGAAAAAGTGGC
tatttcc CT-rich tract
tttttttattctttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttaatgtatgcctcccaatttattaattacatgtagctttctagcatctttttttttattctttctttctttgcataattacataagcatatatttccagGAATTTGAGAGAGATGTTCAAATTAGATGCTGCAGAGTACATGATGTCCATTTGTGGTGATTCTGGTCTAAGGGACATATCTTCACCTGGAAAAAGTGGC
- -atgtatg
- - - - - cctccca
- - - - - - - - - - - - - - acatgta