Sequence
atgc intronic sequence ATGC exonic sequence...ggtaattgtgtcttaataatttcttctgttactctaccttcctaagtgatctttttgcatccatgctttatggaaaaatgtgtgcaattgttttttccagGTTTTGATATGCCGAAATGAGGCCGAAAAATGCTTAATAGAAACATCTATCAATTCATTGCGGATAAGTCTCAAG
Basic information
species | Glycine max |
transcript | GLYMA05G28650.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G28650.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G14147.1 (Arabidopsis thaliana), 3'ss of exon 5
ggtaattgtgtcttaataatttcttctgttactctaccttcctaa-gtgatctttttgcatccatgctttatggaaaaatgtgtgcaattgttttttccagGTTTTGATATGCCGAAATGAGGCCGAAAAATGCTTAATAGAAACATCTATCAATTCATTGCGGATAAGTCTCAAG
|||| | ||| | |||| | | || || | | | || | | | | ||| | | | || ||| || |||||||| ||||||||||||||||| ||||| || ||||||||||||||||| |||||| | |||||||| ||||||
-gtaa--gaagtttacttgtttccctcccagtttagcgttgatattgcattgtcttcttacctaggttttgtagttgactgctaagttttgcaacttgcagGTTTTAATATGCCGAAATGAGGCTGAAAAGTGTTTAATAGAAACATCTATAAATTCACTCCGGATAAGCCTCAAG
upper sequence: GLYMA05G28650.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv05s0029g01310.t01 (Vitis vinifera), 3'ss of exon 4
ggtaattgtgtcttaataatttcttctgttactctaccttcctaagtgatctt-tttgcatc-catgctttatggaaaaatgtgtgcaattgttttttccagGTTTTGATATGCCGAAATGAGGCCGAAAAATGCTTAATAGAAACATCTATCAATTCATTGCGGATAAGTCTCAAG
||| ||| | | || ||| | | | | | || | ||| | |||||| || | || | || | || |||| | |||| |||||||||| || || ||||| || ||||||||||| ||||||||||||||||||||| |||| ||||| ||||||
tataaatgt-tgtacattgttttgtgttcttttacatctaaaccatggatgtcacttgcatttcaaggattgtatttttatttttgaaattatcatttc-agGTTTTGATTTGTCGGAATGAAGCTGAAAAATGCTTGATAGAAACATCTATCAATTCACTGCGAATAAGCCTCAAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|298169680|gb|HO021040.1|HO021040EST: AACCAGCCCTGAACTCCTGCTCAATCCG GTTTTGATATGCCGAAATGAGGCCGAAAAATGCTTAATAGAAACATCTATC
genomic: AACCAGCCCTGAACTCCTGCTCAATCCGgtaagatcca ... ttttttccagGTTTTGATATGCCGAAATGAGGCCGAAAAATGCTTAATAGAAACATCTATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgatctttttgcatccatgctttatggaaaaatgtgtgcaattgttttttccagGTTTTGATATGCCGAAATGAGGCCGAAAAATGCTTAATAGAAACATCTATCAATTCATTGCGGATAAGTCTCAAG
ttgttttttcc CT-rich tract
aattgtttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtaattgtgtcttaataatttcttctgttactctaccttcctaagtgatctttttgcatccatgctttatggaaaaatgtgtgcaattgttttttccagGTTTTGATATGCCGAAATGAGGCCGAAAAATGCTTAATAGAAACATCTATCAATTCATTGCGGATAAGTCTCAAG
- - - -gtgtctt
- - - - - - - - - - -tcttctg
- - - - - - - - - - - - - - - - - - ccttcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgtgc