Sequence
atgc intronic sequence ATGC exonic sequenceGCTTACCCAAACCGTGAGAGAACTAGAAGAGGCTGTCCTTGCAGGTGGTGCAGCTGCCAATGCTGTGAGAGATTATCAACGGAAAGTTCAAGAAATGAATgtaatgtgttaaatttaccaactttactcttctagtttgtttactcaattattacactgatccacctaaaagcatcttaattgttgcatgatttgttttgacactatatag
Basic information
species | Glycine max |
transcript | GLYMA05G34560.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G34560.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os02g50320.2 (Oryza sativa), 5'ss of exon 6
GCTTACCCAAACCGTGAGAGAACTAGAAGAGGCTGTCCTTGCAGGTGGTGCAGCTGCCAATGCTGTGAGAGATTATCAACGGAAAGTTCAAGAAATGAATgtaatgtgttaaatttaccaactttactcttctagtttgtttactcaattattacactgatccacctaaaagcatcttaattgttgcatgatttgttttgacactatatag
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GCTTAGTCAAACTGTAAGAGAGCTGGAAGAGGCTGTTCTTGCTGGTGGTGCAGCTGCTAATGCTGTCAGAGATTACCAGCGGAAAGTTCAAGAAATGAATgtaacatcctttactgttgctttcggataatcttcactgttctgtacgcaaaaaagttgacccatgctaat---ctctaaccatggcacacttag----------------
upper sequence: GLYMA05G34560.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os12g44340.1 (Oryza sativa), 5'ss of exon 6
GCTTACCCAAACCGTGAGAGAACTAGAAGAGGCTGTCCTTGCAGGTGGTGCAGCTGCCAATGCTGTGAGAGATTATCAACGGAAAGTTCAAGAAATGAATgtaatgtgttaaatttaccaactttactcttctagtttgtttactcaattattacactgatccacctaaaagcatcttaattgttgcatgatttgttttgacact-atatag-
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GCTCACTCAGACTGTCAGAGAGCTCGAAGAAGCTGTTCTTGCTGGAGGTGCAGCTGCAAATGCTGTGAGAGACTATCAGCGCAAAGTCCAGGAGATGAATgtaatgcat--gatgccctgagcacacgttcctgat--gtttattc----------------tacctaatagaatggtaattgatgc-caatttacacttatgctgatgtcag
upper sequence: GLYMA05G34560.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os06g14080.1 (Oryza sativa), 5'ss of exon 6
GCTTACCCAAACCGTGAGAGAACTAGAAGAGGCTGTCCTTGCAGGTGGTGCAGCTGCCAATGCTGTGAGAGATTATCAACGGAAAGTTCAAGAAATGAATgtaatgtgttaaa-tttaccaactttactcttctagtttgtttactcaattattacactgatccacctaaa-agcatcttaattgttgcatgatttgttttgacactatatag
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ACTTAGCCTAACCGTGAAAGAACTGGAAGAGGCTGTTCTTCGAGGTGGCGCAACTGCTAATGTAGTTAGAGATTACCAGCGCCAAGTTCAGGAAGTGAATgtaacaacctattctttgactattgcatatgtcatcatgtcttcatgagctcttccccccttctataggaacagttcactcatgcttatttaacatttatgatcattac-cag
upper sequence: GLYMA05G34560.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM5G832989_T01 (Zea mays), 5'ss of exon 6
GCTTACCCAAACCGTGAGAGAACTAGAAGAGGCTGTCCTTGCAGGTGGTGCAGCTGCCAATGCTGTGAGAGATTATCAACGGAAAGTTCAAGAAATGAATgtaatgtgttaaatttaccaactttactcttctagtttgtttactcaattattacactgatcca--cctaaaagcatcttaattgttgcatgatttgttttgacactatatag
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GCTGAGTCAAACTGTGAGAGAGTTGGAAGAGGATGTTCTGCAAGGTGGTGCAGCTGCCAATGTCGTTAGGGATTACCAACGAAAAGTTCAAGAAATGAATgtaacctactatctttcat-------ctcttagggtctgtttggaaaggaagttttatgatccaaatctctaagattctttatag----aaagttgaactaaagcctaaaa--
upper sequence: GLYMA05G34560.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G017525_T01 (Zea mays), 5'ss of exon 2
GCTTACCCAAACCGTGAGAGAACTAGAAGAGGCTGTCCTTGCAGGTGGTGCAGCTGCCAATGCTGTGAGAGATTATCAACGGAAAGTTCAAGAAATGAATgtaatgtgttaaatttaccaactttactcttctagtttgtttactcaattattacactgatccacctaaaagcatcttaattgttgcatgatttgttttgacactatatag
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GCTCACGCAGACTGTCAGAGAGCTAGAAGAATCTGTTCTTGCTGGTGGTGCAGCCGCAAATGCTGTCAGAGACTACCAGCGGAAAGTTCAGGAGATGAATgtaatacatgaatcctgatgtccttggaaatgcattatgcgttttaggatatc-tacttgagcaccatgactaatgcaagttttacaacgtttcctattcttag-------
upper sequence: GLYMA05G34560.1 (Glycine max), 5'ss of exon 6
lower sequence: AT2G01750.1 (Arabidopsis thaliana), 5'ss of exon 7
GCTTACCCAAACCGTGAGAGAACTAGAAGAGGCTGTCCTTGCAGGTGGTGCAGCTGCCAATGCTGTGAGAGATTATCAACGGAAAGTTCAAGAAATGAATgtaatgtgttaaatttaccaactttactcttctagtttgtttactcaattattacactgatcca---cctaaaagcatcttaattgttgcatgatttgttttgacactatatag
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GTTTACCCAGACCGTACGGGAGCTTGAAGAAGCTGTTCTTGCTGGTGGTACAGCTGCAAATGCAGTGAGAGATTACCAGAGGAAATTTCAAGAAATGAATgtaataattaaattacacgtttagtgcctcattagcctattgctacccttgtacttaaaattcaattcctgtgctaatcatagctatggcc--attaatcctttcattag----
upper sequence: GLYMA05G34560.1 (Glycine max), 5'ss of exon 6
lower sequence: AT1G24764.1 (Arabidopsis thaliana), 5'ss of exon 6
GCTTACCCAAACCGTGAGAGAACTAGAAGAGGCTGTCCTTGCAGGTGGTGCAGCTGCCAATGCTGTGAGAGATTATCAACGGAAAGTTCAAGAAATGAATgtaatgtgttaaatttaccaactttactcttctagtttgtttactcaattattac--actgatccacctaaaagcatcttaattgttgcatgatttgttttgacactatatag
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GCTTACTCAGACAGTACGAGAGCTAGAAGAGGCTGTTCTTGCAGGTGGTGCTGCTGCAAATGCCGTGAGGGATTACCAGCGGAAATTTCAAGAGATGAATgtaac----taaacacactt-cataaagtctctaatttcttgtcacaacaattgcctactgatgtaggaataattcttgtttttgtctttcag--------------------
upper sequence: GLYMA05G34560.1 (Glycine max), 5'ss of exon 6
lower sequence: AT1G14840.2 (Arabidopsis thaliana), 5'ss of exon 6
GCTTACCCAAACCGTGAGAGAACTAGAAGAGGCTGTCCTTGCAGGTGGTGCAGCTGCCAATGCTGTGAGAGATTATCAACGGAAAGTTCAAGAAATGAATgtaatgtgttaaatttaccaactttactcttctagtttgtttactcaattattacactgatccacctaaaagcatcttaattgttgcatgatttgttttgacactatatag
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GCTTATGCAGAGTGTTCGGGAATTAGAAGAAGCTGTTCTTGCTGGTGGTGCAGCCGCAAACGCAGTGAGAGATTACCAAAGGAAATTCCAAGAAATGAATgta-tatttcatatgcttctatagtacctcaataacttactgtttttcttgttagtgttttggtctcgtactgatcgtaattgtgg--tgttttgtgttttccttag----
upper sequence: GLYMA05G34560.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv01s0011g05790.t01 (Vitis vinifera), 5'ss of exon 6
GCTTACCCAAACCGTGAGAGAACTAGAAGAGGCTGTCCTTGCAGGTGGTGCAGCTGCCAATGCTGTGAGAGATTATCAACGGAAAGTTCAAGAAATGAATgtaatgtgttaaatttac-caac-----tttactcttctagtttgttt---actca-attattaca-ctgatccacctaa---aagcatctta--attgttgcatgatttgttttgacactatatag------
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ACTAACCCAAACTGTAAGGGAGCTTGAAGAGGCTGTTCTGGCTGGTGGTGCAGCTGCAAATGCTGTCAGAGATTACCAACGGAAAGTTCAAGAGATGAATgtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcagMapped 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|193700394|gb|FK636353.1|FK636353EST: CAGCTGCCAATGCTGTGAGAGATTATCAACGGAAAGTTCAAGAAATGAAT GAAGAAAGAAAAACTCTTGACCGAGAGTTAGCTCGTGCCAAGGTAACAGCA
genomic: CAGCTGCCAATGCTGTGAGAGATTATCAACGGAAAGTTCAAGAAATGAATgtaatgtgtt ... cactatatagGAAGAAAGAAAAACTCTTGACCGAGAGTTAGCTCGTGCCAAGGTAACAGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTTACCCAAACCGTGAGAGAACTAGAAGAGGCTGTCCTTGCAGGTGGTGCAGCTGCCAATGCTGTGAGAGATTATCAACGGAAAGTTCAAGAAATGAATgtaatgtgttaaatttaccaactttactcttctagtttgtttactcaattattacactgatccacctaaaagcatcttaattgttgcatgatttgttttgacactatatag
- - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA