Sequence
atgc intronic sequence ATGC exonic sequence...ccattgcacatgtatcacttaatattgcaattattatttttcactcaatagtagaaatttatacatctttcaaggccgtttctcaactgctttattccagGTCCGTGCTTATGCAGTTAGTGTTCTTGAAAGAGCTGATGATGAAGAGCTTCAGTGTTATTTGCTTCAATTGGTTCAGGCTCTTCGGTTTGAGCGTTCTG
Basic information
species | Glycine max |
transcript | GLYMA06G10090.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G10090.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G103721_T01 (Zea mays), 3'ss of exon 8
ccattgcacatgtatcacttaatattgcaattattattttt-cactcaatagtagaaatttatacatctttcaaggccgtttctcaactgctttattcc--agGTCCGTGCTTATGCAGTTAGTGTTCTTGAAAGAGCTGATGATGAAGAGCTTCAGTGTTATTTGCTTCAATTGGTTCAGGCTCTTCGGTTTGAGCGTTCTG
|| | | | || | | ||||| ||| | | | | | | || | | || || ||| || | || || ||| | | |||| |||| |||||| || || || |||||||| |||||||||||||| | ||||| ||||| || || || || || |||||||||||||| | ||||
-caattctaaaatagtattcgatatttagattctgactctggctatatgctttattatctcatgaattattctgtaaggtaac--aattgtttttctgcaaagGTTCGTGGTTATGCTGTCAGCGTACTTGAAAGGGCTGATGATGAAGAATTACAGTGCTATTTACTCCAGTTAGTGCAAGCTCTTCGGTTTGAAAGATCTG
upper sequence: GLYMA06G10090.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G60490.1 (Arabidopsis thaliana), 3'ss of exon 8
ccattgcacatgtatcacttaatatt-----gcaattattatttttcactcaat------agtagaaatttatacatctttcaa----ggccgtttctcaactgc-tttattc-cagGTCCGTGCTTATGCAGTTAGTGTTCTTGAAAGAGCTGATGATGAAGAGCTTCAGTGTTATTTGCTTCAATTGGTTCAGGCTCTTCGGTTTGAGCGTTCTG
| | | ||| | ||| | || || || | ||| ||||| || | | || | || ||| || ||| |||| ||| | ||| | |||| || |||||||| || ||||| || |||||||||||||||||||||||||||||||| ||||||||| |||||||||||||||| ||||| || ||||
gtactacgagtgtccaatttacttttcttctgctcttctaattcgccactcgatctgcttggctgtcatcttggtatatttaaatgtaggctcattcttcactacacttactgatagGTTCGAGCTTATGCTGTGAGTGTCCTGGAAAGAGCTGATGATGAAGAGCTTCAGTGTTACTTGCTTCAACTGGTTCAGGCTCTTCGTTTTGAACGCTCTG
upper sequence: GLYMA06G10090.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv01s0127g00430.t01 (Vitis vinifera), 3'ss of exon 8
-----ccattgcacatgtatcacttaatattgcaattattatttttcactcaatagtagaaatttatacatctttcaaggccgtttctcaactgctttattccagGTCCGTGCTTATGCAGTTAGTGTTCTTGAAAGAGCTGATGATGAAGAGCTTCAGTGTTATTTGCTTCAATTGGTTCAGGCTCTTCGGTTTGAGCGTTCTG
| || || || | || || || | || | | || || | | | | | | | | || | | | |||| | || ||||| ||||| ||||| || ||||||||||||||||||||||||||||||||||| ||||| || |||||| |||||||||||||||| || ||||| ||||
atttatccttatactagttgtatttgatctttaatttgtgttgttatgttccaca-catcattctgaatgaat---aaaattttattttaactccctt-caacagGTTCGTGCATATGCTGTCAGTGTTCTTGAAAGAGCTGATGATGAAGAGCTTCAATGTTACTTACTTCAACTGGTTCAGGCTCTTCGTTTCGAGCGCTCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caatagtagaaatttatacatctttcaaggccgtttctcaactgctttattccagGTCCGTGCTTATGCAGTTAGTGTTCTTGAAAGAGCTGATGATGAAGAGCTTCAGTGTTATTTGCTTCAATTGGTTCAGGCTCTTCGGTTTGAGCGTTCTG
ctttattcc CT-rich tract
aaatttatacatcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccattgcacatgtatcacttaatattgcaattattatttttcactcaatagtagaaatttatacatctttcaaggccgtttctcaactgctttattccagGTCCGTGCTTATGCAGTTAGTGTTCTTGAAAGAGCTGATGATGAAGAGCTTCAGTGTTATTTGCTTCAATTGGTTCAGGCTCTTCGGTTTGAGCGTTCTG
ccattgc
- - - - catgtat
- - - - - - - - - - - tattgca
- - - - - - - - - - - - - - - - - - - - tcactca