Sequence
atgc intronic sequence ATGC exonic sequence...aaaagcaaaaggctcttctctttggccaaatttggatttgtagctgtgtgaaattaagactgcagacaacttccaataacttaattcatctgcctttcagGTTTTGAGCATGAGTAGACTGGGTGGAGCCGGTGCAGTGGCACCACTGGTAACTGACATTCCATTATCATCAGTCGAG
Basic information
species | Glycine max |
transcript | GLYMA03G31510.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G31510.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G02590.1 (Arabidopsis thaliana), 3'ss of exon 4
---------aaaagcaaaaggctcttctctttggccaaatttggatttgtagctgtgtgaaa-ttaagactgcagacaacttccaataacttaattcatctgcctttcagGTTTTGAGCATGAGTAGACTGGGTGGAGCCGGTGCAGTGGCACCACTGGTAACTGACAT---TCCATTATCATCAGTCGAG
||||| ||||| | || | | || | | || | | ||||| ||| ||| | | || | | ||| || | |||||||||||||||| |||| |||||||||||||| || || ||||| || ||||| || || | ||||||||| |||
tgctcatctaaaagtaaaagctttttttat--------atatataattttcatggggtgaagcttatcactttcaatgatatctgtttctctttgtcaact--ttggtagGTTTTGAGCATGAGCCGACTTGGTGGAGCCGGTGCGGTTGCTCCACTTGTTACTGATATGCCTCTTTCATCATCAGTTGAG
upper sequence: GLYMA03G31510.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0141g00220.t01 (Vitis vinifera), 3'ss of exon 4
aaaagcaaaaggctcttctctttggccaaatttggatttgtagctgtgtgaaat-taagactgcagacaacttccaataact--taattcatctgcctttcagGTTTTGAGCATGAGTAGACTGGGTGGAGCCGGTGCAGTGGCACCACTGGTAACTGACATTCCATTATCATCAGTCGAG
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acagggaatagggactacc---taaacttgttcccattctcatttttcggaaatcttcaacttcatttttttcccgattactgatattctgttcattaaccagGTCTTGAGCATGAGTAGATTGGGCGGAGCTGGTGCAGTTGCACCACTTGTAACAGACATTCCATTAGCATCAGTCGAGMapped 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|193431218|gb|FK398602.1|FK398602EST: TGTTAGATGAAATTGTGGATTATGTCAAGTTCTTAAGGCTTCAAGTGAAG GTTTTGAGCATGAGTAGACTGGGTGGAGCCGGTGCAGTGGCACCACTGGTA
genomic: TGTTAGATGAAATTGTGGATTATGTCAAGTTCTTAAGGCTTCAAGTGAAGgtaaaatgct ... tgcctttcagGTTTTGAGCATGAGTAGACTGGGTGGAGCCGGTGCAGTGGCACCACTGGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtgaaattaagactgcagacaacttccaataacttaattcatctgcctttcagGTTTTGAGCATGAGTAGACTGGGTGGAGCCGGTGCAGTGGCACCACTGGTAACTGACATTCCATTATCATCAGTCGAG
ttcatctgcctttc CT-rich tract
aataacttaattcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaagcaaaaggctcttctctttggccaaatttggatttgtagctgtgtgaaattaagactgcagacaacttccaataacttaattcatctgcctttcagGTTTTGAGCATGAGTAGACTGGGTGGAGCCGGTGCAGTGGCACCACTGGTAACTGACATTCCATTATCATCAGTCGAG
- aagcaaaa
- - - - - - - - - -ctttggc
- - - - - - - - - - - - - - - - - - - -gtagctg
- - - - - - - - - - - - - - - - - - - - - - - - -gaaattaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcagac