Sequence
atgc intronic sequence ATGC exonic sequenceTGCATGGGAGAAGCAGCAGAAAGAAATTGAGCATACAAGAGACTTGATAAGTAGATTAGGTGCTGGAGCAAATTCTGGCCGTGCTTCTTCTGCTGAGAAGgtatatgtcaagaatatattttctcacaagtttaaagggttgttcatgaatggttttatatctaacatgtcctttatgctagagctctttgagcttgaag...
Basic information
species | Glycine max |
transcript | GLYMA06G15200.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G15200.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os11g39020.1 (Oryza sativa), 5'ss of exon 2
TGCATGGGAGAAGCAGCAGAAAGAAATTGAGCATACAAGAGACTTGATAAGTAGATTAGGTGCTGGAGCAAATTCTGGCCGTGCTTCTTCTGCTGAGAAGgtatatgtcaagaatatattttctca-caagtttaa----agggttgttcatgaatggtttta--tatctaacatgtcctttatgctagagctctttgagcttgaag------
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CGCATGGGAGAAGCAGCAGAAGGAGATTGAGCAGACAAAGGAACTGATAAACAGACTTGGGGCTGGAGTTAACGCAGGGCGTGCATCGAGTGAGCAGAAGgtaaccactacaattgcatgattgcggcatgcttcagatcaatacaatctatctcttatttcagccatctgtcat-tacttactaataacttttgtctaatttcaaacactag
upper sequence: GLYMA06G15200.1 (Glycine max), 5'ss of exon 2
lower sequence: AT5G09930.1 (Arabidopsis thaliana), 5'ss of exon 2
TGCATGGGAGAAGCAGCAGAAAGAAATTGAGCATACAAGAGACTTGATAAGTAGATTAGGTGCTGGAGCAAATTCTGGCCGTGCTTCTTCTGCTGAGAAGgtatatgtcaagaatatattttctcacaagtttaaagggttgtt-catgaatggttttatatctaacatgtcctttatgctagagctctttgagcttgaag
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TGCTTGGGAGAAGCAACAGAAAGAGATTGAAGCAACAAAGGATTTGATTAGTAGGCTAAGTGCTGGAGCAAATTCTGGTCGAGCTTCTTCAGCAGAAAAGgtat-taactagtacttatgaagcagagaatatgtatgaaacttacttgaatttgtgtttatataaacag-------------------------------
upper sequence: GLYMA06G15200.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv07s0031g01640.t01 (Vitis vinifera), 5'ss of exon 2
TGCATGGGAGAAGCAGCAGAAAGAAATTGAGCATACAAGAGACTTGATAAGTAGATTAGGTGCTGGAGCAAATTCTGGCCGTGCTTCTTCTGCTGAGAAGgtatatgtcaagaatatattttctcacaagtttaaagggttgttcatgaatggttttatatctaacatgtcctttatgctagagctctttgagcttgaag------
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AGCATGGGAAAAGCAGCAGAAGGAAATTGAACATACAAGAGACTTAATAAGCAGGCTAAGTGGCGGAGCAAATTCTGGCCGTGCATCCACTGCTGAAAAGgtatatat---ggatctactgaatcagtgggtggtataatc--tagtaaattcctgttcatcacaggaaaaaaata-gctaaatctttgtgttggtgagccatcaa
upper sequence: GLYMA06G15200.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S353_7V6.1 (Physcomitrella patens), 5'ss of exon 2
TGCATGGGAGAAGCAGCAGAAAGAAATTGAGCATACAAGAGACTTGATAAGTAGATTAGGTGCTGGAGCAAATTCTGGCCGTGCTTCTTCTGCTGAGAAGgtat-atgtcaagaatata----ttttctcacaag---tttaaagggttgttcatgaatggttttat-------atctaacatgtcctttatgctag-agctctttgagcttgaag----------------
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GTCATGGGAGAAGCAGCAGAAAGAAATTGCACGCTCAGAGGAAATAATTCAGCGGCTCAGCAGTGGCGCTAATTCTGGTCGTGCAACATCTGCTGCAAAGgtgtgaaatcaatactttgcagcttttcttctgagctattcataatcacaagcttcagtgaattcaagagagggaactaagattaggtttaagatactggttgtctgatgttgcaatcactttggattctagMapped 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|120530014|gb|EH258148.1|EH258148EST: GTAGATTAGGTGCTGGAGCAAATTCTGGCCGTGCTTCTTCTGCTGAGAAG AAGCTGGAGAGAC
genomic: GTAGATTAGGTGCTGGAGCAAATTCTGGCCGTGCTTCTTCTGCTGAGAAGgtatatgtca ... atgacaacagAAGCTGGAGAGAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCATGGGAGAAGCAGCAGAAAGAAATTGAGCATACAAGAGACTTGATAAGTAGATTAGGTGCTGGAGCAAATTCTGGCCGTGCTTCTTCTGCTGAGAAGgtatatgtcaagaatatattttctcacaagtttaaagggttgttcatgaatggttttatatctaacatgtcctttatgctagagctctttgagcttgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA