Sequence
atgc intronic sequence ATGC exonic sequencegtaagttgatctagatctgttcaaaaagtttacaagatttccctttatagcatttagaattgactctttttcaattgtccaaagCTACTGGAACACATCACATTTGTTGACACTCCGGGAGTTCTATCTGGAGAAAAGCAACGCACACAACGAGCATATGATTTTACGGGTGTAACATCTTGGT
Basic information
species | Glycine max |
transcript | GLYMA02G46350.2 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G46350.2 (Glycine max), 3'ss of exon 11
lower sequence: AT3G20290.2 (Arabidopsis thaliana), 3'ss of exon 11
gtaagttgatc-------tagatctgttcaaaaa--gtttacaagatttccctttatag---catttagaattg---actctttttcaattgtccaaagCTACTGGAACACATCACATTTGTTGACACTCCGGGAGTTCTATCTGGAGAAAAGCAACGCACACAACGAGCATATGATTTTACGGGTGTAACATCTTGGT
||| ||| | | | |||| | | ||| | | ||| ||| ||| | | | ||||| | | || |||| || ||| ||||| || | |||||||| ||||| || |||||| |||| || ||||| ||| | ||||| |||||||||||||| || ||||| ||||| ||||
gtatgtttaacaacctcatgcttctgacaggagatcgttcattacttttgcctgtattgatttgctgataattgttgatccattcatctttgtttaa-gCTGCTGGAGCATGTAACATTTGTCGACACCCCTGGAGTTTTATCAGGGGAAAAACAAAGAACACAGCGAGCATATGATTTCACTGGTGTTACATCATGGT
upper sequence: GLYMA02G46350.2 (Glycine max), 3'ss of exon 11
lower sequence: Vv19s0090g01130.t01 (Vitis vinifera), 3'ss of exon 11
gtaagttgat---ctagatctgttcaaaaagtttacaagatttccctttatagcatttagaattgactctttttcaattgtccaaagCTACTGGAACACATCACATTTGTTGACACTCCGGGAGTTCTATCTGGAGAAAAGCAACGCACACAACGAGCATATGATTTTACGGGTGTAACATCTTGGT
|| |||| | ||| | | | || ||| | | || | | ||||| | || | | |||||| | || ||||||||||||| |||||||| ||||| || ||||| ||||||||||| |||||||||||||| ||||| ||||| || |||||||| ||||||||||| ||||
gtgagttattactctataattatcatggaaatttctagattatcattctgtagcacctgaaacttaatcttttata--tgatcaaagCTACTGGAGCACATCACGTTTGTGGATACTCCTGGAGTTCTATCAGGAGAAAAGCAACGAACACAGCGAGCCTACGATTTTACTGGTGTAACATCATGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacaagatttccctttatagcatttagaattgactctttttcaattgtccaaagCTACTGGAACACATCACATTTGTTGACACTCCGGGAGTTCTATCTGGAGAAAAGCAACGCACACAACGAGCATATGATTTTACGGGTGTAACATCTTGGT
aattgac putative branch site (score: 3)
atttagaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttgatctagatctgttcaaaaagtttacaagatttccctttatagcatttagaattgactctttttcaattgtccaaagCTACTGGAACACATCACATTTGTTGACACTCCGGGAGTTCTATCTGGAGAAAAGCAACGCACACAACGAGCATATGATTTTACGGGTGTAACATCTTGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA