Sequence
atgc intronic sequence ATGC exonic sequenceGCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCGgtaagttttttgtggatagaatttttgcaattaatttcttaatataattttttaagcccttgaatagtgctgagtgggaagctgtgccaaattgtgcctgaattatgaaattttcttatccttaactcttttctcgtatcgggtgcattcaaacag
Basic information
species | Glycine max |
transcript | GLYMA13G43680.2 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os06g05180.2 (Oryza sativa), 5'ss of exon 9
GCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCGgtaagttttttgtggatagaatttttgcaattaatttcttaatataattttttaagcccttgaatagtgctgagtgggaagctgtgccaaattgtgcctgaattatgaaattttcttatccttaactcttttctcgtatcgggtgcattcaaacag
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ACTTGAGAACACGCTAAACTATGGTCTTGAACGAGTCTGGGCTGTTGGATACATGAAGGGTTCAAGAAGgtaaac--------agaagatcctttgcattctgctttt--gtgttgcattgtaatc-----aattgcttttactactgttctgcgtcactcctcctttcaatt------ttttaacaccattcgacattttatgatatgtag-------------
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G000645_T03 (Zea mays), 5'ss of exon 9
GCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCGgtaagttttttgtggatagaatttttgcaattaatttcttaatataattttttaagcccttgaatagtgctgagtgggaagctgtgccaaattgtgcctgaattatgaaattttcttatccttaactcttttctcgtatcgggtgcattcaaacag
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ACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATACATGAAGGGGTCTAGAAGgtaagatcatt-tgcattctctttttg---------tttcagtagtgctgttagttgtaatggacactagctattaatatagcatttcacttttgagtagaacta-gaagc---------------------------------------------
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 8
GCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCGgtaagttttttgtggatagaatttttgcaattaatttcttaatataattttttaagcccttgaatagtgctgagtgggaagctgtgccaaattgtgcctgaattatgaaattttcttatccttaactcttttctcgtatcgggtgcattcaaacag
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ACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATACATGAAGGGATCAAGAAGgtaagatc-------atctacattctgcttttgtttcagtagtgctgtcagtta---ttatggacactaactattaatatatcatctcacttttgagtagaacta-gaagc---------------------------------------------
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 9
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 13
GCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCGgtaagttttttgtggatagaatttttgcaattaatttcttaatata-----attttttaagcccttgaatagtgctgagtgggaagctgtgccaaattgtgcctgaattatgaaattttcttatccttaactcttttctcgtatcgggtgcattcaaacag
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GCTTGAGAATACATTGAACTATGGCCTTGAGAGGGTTTGGGCTATTGGACACATTAAAGGTTCACGCCGgtaagtttctgatcttttactatgtcaatatttattccctattaaagatatatatcttcacatcataattatttctttgtgtaaatttatgtt---tccttcataacttacgagatggcaata-ccttgtctttttccag---------------------
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 9
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 5'ss of exon 9
GCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCGgtaagttttttgtggatagaatttttgcaattaatttcttaatataattttt-taagcccttgaatagtgctgagtgggaagctgtgccaaattgtgcctgaattatgaaattttcttatccttaactcttttctcgtatcgggtgcattcaaacag
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GCTAGAAAACACATTAAATTATGGTCTCGAGAGAGTTTGGGCCATTGGTTACATCAAAAGTTCTCGGCGgtgagttttt--------gtacttttaatacttaatgcttattagaattttgatcaaaaagtagatgttctctattggtagaattt--ttgtttctgtcattattgtagc-----------------------------------------------
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 9
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 9
GCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCGgtaagttttttgtggatagaatttttgcaattaatttcttaatataattttttaagcccttgaatagtgctgagtgggaagctgtgccaaattgtgcctgaattatgaaattttcttatccttaactcttttctcgtatcgggtgcattcaaacag
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GCTCGAGAACACGTTGAATTATGGTCTTGAAAGAGTTTGGGCTGTTGGATACATGAAAGGTTCACGCCGgttagtgtcttctccttcttactactaccacta-----ctactactttttttcatttcaatttattggtct---tttgaatttttttt---tctggtttgaactttgaagt---------------------------------------------Mapped 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|9987279|gb|BE661387.1|BE661387EST: TATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCG GGTTGTGATTGGCTATGATGAAGGAACAATTATGGTCAAACTTGGTCGAGA
genomic: TATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCGgtaagttttt ... attcaaacagGGTTGTGATTGGCTATGATGAAGGAACAATTATGGTCAAACTTGGTCGAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCGgtaagttttttgtggatagaatttttgcaattaatttcttaatataattttttaagcccttgaatagtgctgagtgggaagctgtgccaaattgtgcctgaattatgaaattttcttatccttaactcttttctcgtatcgggtgcattcaaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA