Sequence
atgc intronic sequence ATGC exonic sequence...aactgttatgttgtaggaaaagatgcacaattcaagcataacattttagctgtacattaagtcgatatcatctctttttcaaccttatcattttactcagGGAAAACAAAACAAAAATACTGGAATTTCTACGTAAATCCTGGGAGATTGATAGGAGAACTGAATGGTCAATATGGATGGTGTACTCAAAGGTTGCAATG
Basic information
species | Glycine max |
transcript | GLYMA08G08190.3 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G08190.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G58350.3 (Arabidopsis thaliana), 3'ss of exon 8
--aactgttatgttgtaggaaaagatgcacaa-ttcaagcataacat------tttagctgtacattaag-----tcgatatcatctctttttcaacc--ttatca------ttttactcagGGAAAACAAAACAAAAATACTGGAATTTCTACGTAAATCCTGGGAGATTGATAGGAGAACTGAATGGTCAATATGGATGGTGTACTCAAAGGTTGCAATG
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gtaattcttttgtacttcaatgatctaattaagtttcagaccaagatcgtttctttatctatctactgagagactctgaaaatatcaatattctaggcatttatcgcatatgtcctttttagGGATAATCACACAAAAATACTTGAATATCTTCGTGATATCTGGACTAAAGATCGGAGAGCTGAATGGTCAATATGGATGGTGTACTCTAAGGTTGAAATG
upper sequence: GLYMA08G08190.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G09980.2 (Arabidopsis thaliana), 3'ss of exon 8
aactgttatgttgtaggaaaagatgcacaattcaagcataacattttagctgtacattaagtcgatatcatctctttttcaaccttatcattttact---cagGGAAAACAAAACAAAAATACTGGAATTTCTACGTAAATCCTGGGAGATTGATAGGAGAACTGAATGGTCAATATGGATGGTGTACTCAAAGGTTGCAATG
| | | | | | || ||| | | | | ||| ||| |||| |||| ||| | | || |||| || || |||||| || | |||||||| |||||| ||| || | |||| | ||| | ||| | |||||||||||||||||||||||||| ||||||| ||||
-gtaagtttcctttggacatccatagtcaaataagcctacaggtttataatgtttgcgaagt---tatcttctgatcattgactttatttttccccttttcagGGATAATTACACAAAAATCTTGGAATATCTTCGCGATATCTGGACTAAAGATCGAAGAGCGGAATGGTCAATATGGATGGTGTACTCCAAGGTTGAAATG
upper sequence: GLYMA08G08190.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv12s0055g00430.t01 (Vitis vinifera), 3'ss of exon 7
aactgttatgttgtaggaaaagatgcacaattcaagcataacattttagctgtacattaagtcgatatcatctctttttc-aaccttatcattttactcagGGAAAACAAAACAAAAATACTGGAATTTCTACGTAAATCCTGGGAGATTGATAGGAGAACTGAATGGTCAATATGGATGGTGTACTCAAAGGTTGCAATG
|| | | | ||| | ||| | || | | ||| || || | || | || | | | |||| ||| ||||| ||||||| ||| |||||||||||||| | | | |||| || |||| ||||| |||||||||||||||||||||| ||||| ||||| | |||
aaaaggga-gaaatagttgagcatgtggattttgcactacatgatttgtgcttatttttctgtgccattaattcaaatgctgatgttatactttgttccagGGCTAACAAAAAAAAGATACTGGAATTTCTGATTGATGCATGGGCGAATGATCGGAGAGCTGAATGGTCAATATGGATGGTATACTCTAAGGTCGAGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagctgtacattaagtcgatatcatctctttttcaaccttatcattttactcagGGAAAACAAAACAAAAATACTGGAATTTCTACGTAAATCCTGGGAGATTGATAGGAGAACTGAATGGTCAATATGGATGGTGTACTCAAAGGTTGCAATG
ttttactc CT-rich tract
ttatcatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aactgttatgttgtaggaaaagatgcacaattcaagcataacattttagctgtacattaagtcgatatcatctctttttcaaccttatcattttactcagGGAAAACAAAACAAAAATACTGGAATTTCTACGTAAATCCTGGGAGATTGATAGGAGAACTGAATGGTCAATATGGATGGTGTACTCAAAGGTTGCAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA