Sequence
atgc intronic sequence ATGC exonic sequenceAAGAGCCGAAGGAGTGGGTGGCGCAGGTTGAGCCCGGCGTTTTGATCACCTTCGTGTCGCTTCCCCGTGGCGGGAACCATCTCAAACGGATACGATTCAGgtacgtgctcggccaatgttaatcggttaattgttaatttttatttgcgggcaaattcccaccatctcctgtatgttttttcttcttcttcgctgtatat...
Basic information
species | Glycine max |
transcript | GLYMA09G07930.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G07930.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os08g36020.1 (Oryza sativa), 5'ss of exon 2
AAGAGCCGAAGGAGTGGGTGGCGCAGGTTGAGCCCGGCGTTTTGATCACCTTCGTGTCGCTTCCCCGTGGCGGGAACCATCTCAAACGGATACGATTCAGgtacgtgctcggccaatgttaatcggttaattgttaatttttatttgcgggcaa--attcccaccatctcctgtatgttttttcttcttcttcgctgtatat-
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ACGAGGCGAAGGAGTGGGTCGCCCAGGTGGAGCCCGGCGTGCTCATCACCTTCCTCTCGCTGCCGGAGGGCGGCAACGACCTCAAACGGATCCGATTCAGgtgagttttttgcgctcatctctca--caagttttgcatcgtagtagagcactatgatttgattcatctttacaaagttacaaacaagtagt-gttttgagtt
upper sequence: GLYMA09G07930.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G429658_T01 (Zea mays), 5'ss of exon 2
AAGAGCCGAAGGAGTGGGTGGCGCAGGTTGAGCCCGGCGTTTTGATCACCTTCGTGTCGCTTCCCCGTGGCGGGAACCATCTCAAACGGATACGATTCAGgtacgtgc--tcggccaatgttaatcggttaattgttaatttttatttgcgggcaaattcccaccatctcctgtatgttttttcttcttcttcgctgtatat-
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ACGACGCCAAGGAGTGGGTGGCGCAGGTGGAGCCCGGCGTGCTCATTACCTTCGTCTCACTGGCGCAAGGTGGCAACGATCTAAAACGTATTCGGTTCAGgtgcgttcctttggctacttgggatga---aattctgcttcgcaattcgattacttgatcacaaatgattccgtttgctttctccctgtgagaaaatttgatc
upper sequence: GLYMA09G07930.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G066672_T01 (Zea mays), 5'ss of exon 3
AAGAGCCGAAGGAGTGGGTGGCGCAGGTTGAGCCCGGCGTTTTGATCACCTTCGTGTCGCTTCCCCGTGGCGGGAACCATCTCAAACGGATACGATTCAGgtacgtgctcggccaatgttaatcgg--ttaattgttaatttttatttgcgggcaaattcccaccatctcctgtatgttttttcttcttcttcgctgtatat-
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ACGACGCCAAGGAGTGGGTGGCGCAGGTGGAGCCCGGTGTGCTCATCACTTTCGTCTCACTGGCGGAAGGTGGCAACGACCTAAAACGCATTCGATTCAGgtgcgttcctttcgctccttccttgggatgaattttcagtcctgcttcacaagtcgatt---acttgatcacaaatgattccgtttgttttatccttttgagc
upper sequence: GLYMA09G07930.1 (Glycine max), 5'ss of exon 1
lower sequence: AT5G20540.1 (Arabidopsis thaliana), 5'ss of exon 2
AAGAGCCGAAGGAGTGGGTGGCGCAGGTTGAGCCCGGCGTTTTGATCACCTTCGTGTCGCTTCCCCGTGGCGGGAACCATCTCAAACGGATACGATTCAGgtacgtgctcggccaatgttaatcggttaattgttaatttttatttgcgggcaa-attcccaccatctcctgtatgttttttcttcttcttcgctgtatat
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AAGAGCCTAAAGAATGGGTTGCTCAGGTTGAGCCCGGAGTTCTCATAACCTTCGTTTCTCTTCCCGGCGGTGGTAATGATCTCAAGCGGATACGTTTCAGgtacgttactgtgcaccttacttcatcctacggttacgattgttttgttgactctgtttttcttatcgtacggttaggtttagtttggcttcgtcgt-tgc
upper sequence: GLYMA09G07930.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv11s0016g01460.t01 (Vitis vinifera), 5'ss of exon 3
AAGAGCCGAAGGAGTGGGTGGCGCAGGTTGAGCCCGGCGTTTTGATCACCTTCGTGTCGCTTCCCCGTGGCGGGAACCATCTCAAACGGATACGATTCAGgtacgtgc-tcggccaatgttaatcggttaattgttaatttttatttgcgggcaaattcccaccatctcctgtatgttttttctt-cttcttcgctgtatat----
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ATGAGCCGAAAGAGTGGGTGGCCCAGGTCGAGCCCGGCGTGCTCATCACCTTCGTCTCCCTTCCCCGTGGAGGGAACGATCTCAAGCGCATTCGGTTCAGgtacttctgtcctccgattccatttcaacggtc-ttgatttgtttt-----acagtctttacctgtttccgacgtatttccgttaacttgttcaaggttttcagcaMapped 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|17023158|gb|BM094192.1|BM094192EST: TTCGTGTCGCTTCCCCGTGGCGGGAACCATCTCAAACGGATACGATTCAG CCGTGAGATATTTAACAAATGGCAAGCTCAAAGATGGTGGGCAGAGAACTA
genomic: TTCGTGTCGCTTCCCCGTGGCGGGAACCATCTCAAACGGATACGATTCAGgtacgtgctc ... ttatgtatagCCGTGAGATATTTAACAAATGGCAAGCTCAAAGATGGTGGGCAGAGAACTA
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
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AAGAGCCGAAGGAGTGGGTGGCGCAGGTTGAGCCCGGCGTTTTGATCACCTTCGTGTCGCTTCCCCGTGGCGGGAACCATCTCAAACGGATACGATTCAGgtacgtgctcggccaatgttaatcggttaattgttaatttttatttgcgggcaaattcccaccatctcctgtatgttttttcttcttcttcgctgtatat
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