Sequence
atgc intronic sequence ATGC exonic sequence...gaatttttgaaaaaaaagtgattattttctcaacaaatatacaaagcatgaataagtgattatttacttactctttcgactaaatatttatttttcacagTGCCCACAGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCTGAGGCTCTCCCATTTTGTGCCATTGCATATGCTCTGAATGGTATTTGGATCTATACT
Basic information
species | Glycine max |
transcript | GLYMA08G34720.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G34720.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G32080.1 (Arabidopsis thaliana), 3'ss of exon 7
--gaatttttgaaaaaaaagtgattattttctcaacaaatatacaaagcatgaataagtgattatttacttactctttcgactaaatatttatttttcacagTGCCCACAGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCTGAGGCTCTCCCATTTTGTGCCATTGCATATGCTCTGAATGGTATTT--GGATCTATACT
|| | | | |||| | | | || | || || || | |||| ||| | |||| | | | || ||||| || | ||||||| || | |||||||||||||||||||| || ||||| || |||||||| || |||||||| || || |||||||| | || || | ||||| ||
gtgactccattacaaaagatctttcacattttgaattaaaatt--atgcattaat--gccattaggatcaaaagacatgacctttctattttttatggacagTGCTCATGGACTTGGAACAGCAGCTTTGTCGGCTAAGGAGCCAGAGGCTCTTCCCTTTTGTGCAATAGCTTATGCTCTTACCGGAATCTTCGGATCGTTA--
upper sequence: GLYMA08G34720.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv08s0056g01690.t01 (Vitis vinifera), 3'ss of exon 7
gaatttttgaaaaaaaagtgattatt-ttctcaacaaatatacaaagcatgaataagtgattatttacttactctttcgactaaatatttatttttcacagTGCCCACAGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCTGAGGCTCTCCCATTTTGTGCCATTGCATATGCTCTGAATGGTATTTGGATCTATACT-
| | | | | | |||| || | | | |||| ||||| ||| || | || | | ||| | || ||||||| || | || || || || || |||| || |||||||| |||||||||||||||||||||||||| |||||||| | ||| |||| || |||
cgaaatacaagtatctggagtctattattattataagatatgatgcgcatgttgggatgagtaaaatatgttgtttgttgtttgttgtttgatgtt-acagTGCTCATGGACTGGGCACTGCGGCACTGTCAGCAAAGGAACCGGAGGCTCTCCCATTTTGTGCCATTGCTTATGCTCTCACTGGAATTTTCGGCT-CACTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcatgaataagtgattatttacttactctttcgactaaatatttatttttcacagTGCCCACAGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCTGAGGCTCTCCCATTTTGTGCCATTGCATATGCTCTGAATGGTATTTGGATCTATACT
tttatttttc CT-rich tract
tttcgactaaatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaatttttgaaaaaaaagtgattattttctcaacaaatatacaaagcatgaataagtgattatttacttactctttcgactaaatatttatttttcacagTGCCCACAGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCTGAGGCTCTCCCATTTTGTGCCATTGCATATGCTCTGAATGGTATTTGGATCTATACT
- - - - -aaaaaaa
- - - - - - - - - - - - - - ctcaaca
- - - - - - - - - - - - - - - - - - - - - - -gcatgaa