Sequence
atgc intronic sequence ATGC exonic sequencegtcataatggccttcacttaattcctggggttcagtttttattagtcaagccttggtattgtttgtagtttggacaatcctccttctttcattgatctgactaattgttgttatttgatgattatagGAGGAAGATTTGCATTTGGAGAATGTGTACTACTCTGAAATGAAAGATGCTGGTTTCTTTGAAGCAGATTGGAACTGATGTGGTATCGACTGCTAGATTA
Basic information
species | Glycine max |
transcript | GLYMA10G30010.3 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G30010.3 (Glycine max), 3'ss of exon 3
lower sequence: AT5G27210.1 (Arabidopsis thaliana), 3'ss of exon 5
gtcataatggccttcacttaattcctggggttcagtttttattagtcaagccttggtattgtttgtagtttggacaatcctccttctttcattgatctgactaattgttgttatttgatgattatagGAGGAAGATTTGCATTTGGAGAATGTGTACTACTCTGAAATGAAAGATGCTGGTTTCTTTGAAGCAGATTGGAACTGATGTGGTATCGACTGCTAGATTA
||| | | | || || || | | ||| |||| | || | | | |||| ||||||||| | ||||||||||| |||||||| || ||||| |||||||| || || || | |||||| | | || | ||
-------------------------------------------------------gtaatcatcatcattcatcttctctcactgactctctcactctctctaaa-atgcaaatgggtttgctgcagGAAGAAGATTTGAACTTGGAGAATGTATACTACTCAGAGATGAAGGATGCTGGATTTTTCGACTCTGATTGGGAATAGGACTAGGGTAACAAACATCTTC
upper sequence: GLYMA10G30010.3 (Glycine max), 3'ss of exon 3
lower sequence: AT3G05010.1 (Arabidopsis thaliana), 3'ss of exon 5
gtcataatggccttcacttaattcctggggttcagtttttattagtcaagccttggtattgtttgtagtttggacaatcctccttctttcattgatctgactaattgttgttatttgatgattatagGAGGAAGATTTGCATTTGGAGAATGTGTACTACTCTGAAATGAAAGATGCTGGTTTCTTTGAAGCAGATTGGAACTGATGTGGTATCGACTGCTAGATTA
| | ||||| || | || | | | || ||| || | ||| | | | || | || | | ||||||||||| || ||||||||||||| ||||| || ||||||||||||||||| ||||| || || |||||| | | | | | | || | |
-------------------------accatcgccatcactattaccatagtaccatcaccattacca--tagtaccatcttcatcaccacatgatttggtgctaaaattcacttgtgtttgcttcagGAGGAAGATCTGAATTTGGAGAATGTCTACTATTCAGAAATGAAAGATGCTGGATTCTTCGACGCTGATTGGGAATAACAGGAGTCCTAGTGTCTTGTCA
upper sequence: GLYMA10G30010.3 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0030g00750.t01 (Vitis vinifera), 3'ss of exon 5
gtcat--aatggccttcacttaattcctggggttcagtttttattagtcaagccttggtattgtttgtagtttggacaatcctccttctt-tcattgatctgactaatt----gttgttatttgatg-------attatagGAGGAAGATTTGCATTTGGAGAATGTGTACTACTCTGAAATGAAAGATGCTGGTTTCTTTGAAGCAGATTGGAACTGATGTGGTATCGACTGCTAGATTA
||||| ||| || || ||| |||| | ||||| | | || ||| | | ||| ||| | || | |||||| || | | ||| | | | | || || | |||||||||||||||||||||||||||| ||||||||||| ||||||||||| || |||||||| || |||||| | ||||| | | || || |
gtcatcggatgtccatcccttgc------aagttcctctgttatttctttgaaatctgttttgccc-cattccatgtaatactctattttatgattgattagattcgctataggttatgactgggtgtgctgtgatgacagGAGGAAGATTTGCATTTGGAGAATGTATACTACTCTGAGATGAAAGATGCCGGCTTCTTTGATGCTGATTGGGAGTGATGCAACTGCACTTTCTGAATCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gacaatcctccttctttcattgatctgactaattgttgttatttgatgattatagGAGGAAGATTTGCATTTGGAGAATGTGTACTACTCTGAAATGAAAGATGCTGGTTTCTTTGAAGCAGATTGGAACTGATGTGGTATCGACTGCTAGATTA
ttatttgatgattata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcataatggccttcacttaattcctggggttcagtttttattagtcaagccttggtattgtttgtagtttggacaatcctccttctttcattgatctgactaattgttgttatttgatgattatagGAGGAAGATTTGCATTTGGAGAATGTGTACTACTCTGAAATGAAAGATGCTGGTTTCTTTGAAGCAGATTGGAACTGATGTGGTATCGACTGCTAGATTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT