Sequence
atgc intronic sequence ATGC exonic sequenceTGACATTGGGAGAGTTCATCCAGATGGATGCCTTGAAATCATTGATCGTAAAAAGGACATTGTTAAACTACAGCACGGAGAATATGTCTCCTTGGGAAAGgtatagatattacttttattagttctttttagattttaaaagaagagatgtgttgttcagaggactacttaaacttttattgctaggctcaatatataga...
Basic information
species | Glycine max |
transcript | GLYMA13G03280.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G03280.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os12g07110.2 (Oryza sativa), 5'ss of exon 9
TGACATTGGGAGAGTTCATCCAGATGGATGCCTTGAAATCATTGATCGTAAAAAGGACATTGTTAAACTACAGCACGGAGAATATGTCTCCTTGGGAAAGgtatagatattacttttattagttctttttagattttaaaagaagagatgtgttgttcagaggactacttaaacttttattgctaggctcaatatataga
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TGACATCGGGCGCTTCCACCCAGATGGCTGCCTTGAAATCATTGACCGTAAAAAGGATATTGTGAAGCTTCAACATGGTGAATATGTGTCTCTCGGGAAGgt-cagcaatagtcat-----gttctgttcagact-----agtagttgttagcccttctta--actgattggaccatcacag------------------
upper sequence: GLYMA13G03280.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os11g06880.1 (Oryza sativa), 5'ss of exon 5
TGACATTGGGAGAGTTCATCCAGATGGATGCCTTGAAATCATTGATCGTAAAAAGGACATTGTTAAACTACAGCACGGAGAATATGTCTCCTTGGGAAAGgtatagatattacttttattagttctttttagattttaaaagaagagatgtgttgttcagaggactacttaaacttttattgctaggctcaatatataga
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TGACATTGGACGTTTGCATCCAGATGGTTGCCTTGAAATTATTGACCGTAAGAAGGACATAGTCAAGCTTCAACATGGTGAATATGTATCTTTAGGAAAGgta-agcta--agcttcctt--ttccagccaaattagcggcagtcagctattgtaatctaactatta-taaaaccacag---------------------
upper sequence: GLYMA13G03280.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G118286_T01 (Zea mays), 5'ss of exon 10
TGACATTGGGAGAGTTCATCCAGATGGATGCCTTGAAATCATTGATCGTAAAAAGGACATTGTTAAACTACAGCACGGAGAATATGTCTCCTTGGGAAAGgtatagatattacttttattagttctttttagattttaaaagaagagatgtgttgttcagaggactacttaaacttttattgctaggctcaatatataga
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AGACATCGGACGGTTCCATCCAGATGGCTGCCTTGAAATCATTGACCGTAAGAAAGATATCGTGAAGCTTCAACATGGCGAATATGTATCTCTCGGGAAGgtatg--caatattcttatt---------ctggtccaactggctgaattgcactgctta----acttgttaggtgatgacag------------------
upper sequence: GLYMA13G03280.1 (Glycine max), 5'ss of exon 9
lower sequence: AT1G77590.1 (Arabidopsis thaliana), 5'ss of exon 10
TGACATTGGGAGAGTTCATCCAGATGGATGCCTTGAAATCATTGATCGTAAAAAGGACATTGTTAAACTACAGCACGGAGAATATGTCTCCTTGGGAAAGgtatagatattacttttattagttctttttagattttaaaagaagagatgtgttgttcagagga-ctacttaaacttttattgctaggctcaatatataga
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AGACATAGGACGATTTCACCCTGATGGCTGCCTCGAGATAATAGACCGAAAAAAGGATATCGTTAAACTTCAGCATGGAGAATATGTCTCCTTGGGCAAAgtatagttttctcaatccgaatacccttttttgtcttcatcac-----tcaattctccggagaagcttcttaaaacattcttttttttcgcag--------
upper sequence: GLYMA13G03280.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv18s0001g02810.t01 (Vitis vinifera), 5'ss of exon 11
TGACATTGGGAGAGTTCATCCAGATGGATGCCTTGAAATCATTGATCGTAAAAAGGACATTGTTAAACTACAGCACGGAGAATATGTCTCCTTGGGAAAGgtatagat-------attacttttattagttctttttagattttaaaagaagagatgtgttgttcagaggactacttaaacttttattgctaggctcaatatataga-------
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GGACATAGGGCAGTTTCATGCTGATGGTTGCCTTGAAATAATTGACCGTAGAAAGGACATAGTTAAACTTCAGCATGGAGAATATTTATCTCTAGGAAAGgtatgcatgatgtaaaataatgtttttcgtttttctttccttttcttctcctttgatttttatttt-attatta-ttacctttttattttttaaactaataccttcctctacagMapped 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|298183057|gb|HO028320.1|HO028320EST: AAAAGGACATTGTTAAACTACAGCACGGAGAATATGTCTCCTTGGGAAAG GTTGAGGCAGCTCTTATTGTTAGCCCCTTCGTGGACAATATTATGGTTCAT
genomic: AAAAGGACATTGTTAAACTACAGCACGGAGAATATGTCTCCTTGGGAAAGgtatagatat ... ttaaatacagGTTGAGGCAGCTCTTATTGTTAGCCCCTTCGTGGACAATATTATGGTTCAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGACATTGGGAGAGTTCATCCAGATGGATGCCTTGAAATCATTGATCGTAAAAAGGACATTGTTAAACTACAGCACGGAGAATATGTCTCCTTGGGAAAGgtatagatattacttttattagttctttttagattttaaaagaagagatgtgttgttcagaggactacttaaacttttattgctaggctcaatatataga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA