Sequence
atgc intronic sequence ATGC exonic sequence...gttaatgtacagcttcataatgttttctttctcagatttttctttctattaaacatttagactacctggtcgcttataaagtttttgtttattttcttagAGAAGAGGAAGGGCTGGTCGTGTTCAGCCTGGTGAATGCTACCATCTTTATCCCAGATGTGTTTATGATGCTTTTGCTGATTATCAATTGCCAGAGCTTT
Basic information
species | Glycine max |
transcript | GLYMA08G05480.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G05480.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 11
gttaatgtacagcttcataatgttttctttctcagatttttctttc-tattaaacatttagactacctggtcgcttataaagtttttgtttattttcttagAGAAGAGGAAGGGCTGGTCGTGTTCAGCCTGGTGAATGCTACCATCTTTATCCCAGATGTGTTTATGATGCTTTTGCTGATTATCAATTGCCAGAGCTTT
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cgtggcttttaacctgaaaattgtcactgtctaagtcaattctatcacatcacttacctctaattttattttgctaattaaataaatgaatataatat-agAGACGAGGACGAGCTGGCCGAGTCCAACCAGGGGAGTGCTACCATCTTTATCCACGATGTGTATATGATGCATTTGCTGACTACCAGTTACCAGAACTTC
upper sequence: GLYMA08G05480.1 (Glycine max), 3'ss of exon 11
lower sequence: AT1G48650.1 (Arabidopsis thaliana), 3'ss of exon 11
gttaatgtacagcttcataatgttttctttct----cagatttttctttctattaaacatttagac-tacctggtcgcttataaagtttttgtttattttcttagAGAAGAGGAAGGGCTGGTCGTGTTCAGCCTGGTGAATGCTACCATCTTTATCCCAGATGTGTTTATGATGCTTTTGCTGATTATCAATTGCCAGAGCTTT
||| | || ||||||| | || | ||||| ||| |||| | ||| || | | | | |||| | |||| ||||||||||||| |||||||||||| |||||| ||||| || || || ||||| |||||||| || || ||||||||||| || || ||| || |||
-gtaagagataga--cataatgactactgctcaaagtaaattttgatttatattcg-tgtgtagttgtatataattgtgccttttcttttcctctatt---acagAGAAGAGGAAGAGCTGGTCGTGTTATGCCTGGAGAATGTTATCACCTCTATCCTAGATGTGTCTACGAAGCTTTTGCTGACTACCAGCAGCCGGAACTTC
upper sequence: GLYMA08G05480.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv17s0000g03030.t01 (Vitis vinifera), 3'ss of exon 10
--gttaatgtacagctt--cataatgttttctttctcagatttttctttctattaaacatttagactacctggtcgcttataaagtttttgtttattttct-tagAGAAGAGGAAGGGCTGGTCGTGTTCAGCCTGGTGAATGCTACCATCTTTATCCCAGATGTGTTTATGATGCTTTTGCTGATTATCAATTGCCAGAGCTTT
||| | | | | |||| |||| || | | | || ||| | || | || || | ||| | || | || ||||| | |||||||||||||| || |||||||| || ||||||||||| |||||||| ||||| | |||||| |||||||||||| ||||||| ||||||||||| |||
gggtttaagcagtttcttacatatcattttgcttttgtacgatgttttgggatttatcacatggattaaa-----gtttactgatttgctcttcattttttatagAGAAGAGGAAGAGCGGGTCGTGTACAACCTGGTGAATGTTACCATCTGTATCCAAAATGTGTATATGATGCTTTTTCTGATTACCAATTGCCAGAACTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctattaaacatttagactacctggtcgcttataaagtttttgtttattttcttagAGAAGAGGAAGGGCTGGTCGTGTTCAGCCTGGTGAATGCTACCATCTTTATCCCAGATGTGTTTATGATGCTTTTGCTGATTATCAATTGCCAGAGCTTT
tttttgtttattttct CT-rich tract
ttataaagtttttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaatgtacagcttcataatgttttctttctcagatttttctttctattaaacatttagactacctggtcgcttataaagtttttgtttattttcttagAGAAGAGGAAGGGCTGGTCGTGTTCAGCCTGGTGAATGCTACCATCTTTATCCCAGATGTGTTTATGATGCTTTTGCTGATTATCAATTGCCAGAGCTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - -cagcttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctacctg