Sequence
atgc intronic sequence ATGC exonic sequenceAGATGGCACAGATGACCATAAGAAAGGAACCCAACTTTTGGAGGTATATGCTGTAGAGATTCAAATGTACACTGAGACCAAGAACAACAAAAAACTTAAGgtcaggatttgttttatagaagaaattcttgttcttgcatgacttaagtagttaagtaattatgtcttttcaaattcttttattgtgtttgcctgcaatt...
Basic information
species | Glycine max |
transcript | GLYMA19G17660.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G17660.3 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os01g17180.1 (Oryza sativa), 5'ss of exon 6
AGATGGCACAGATGACCATAAGAAAGGAACCCAACTTTTGGAGGTATATGCTGTAGAGATTCAAATGTACACTGAGACCAAGAACAACAAAAAACTTAAGgtcaggatttgttttatagaagaaattcttgttcttgcatgacttaagtagttaagtaattatgtcttttcaaattcttttattgtgtttgcctgcaatt----------
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AGATGGTTCTGATGATCAGAAGAAAGGCACACAACTTTTGGAAGTCTATGCTATTGAGATCCAAATGTACACTGAAACAAAGAACAACAAAAAATTGAAGgt-aagacatattgtc--------agtctt-tttacacgtgattattttggattacaggttactactgttcaagattttgtgtcagtttcttgttcaatattgcagtact
upper sequence: GLYMA19G17660.3 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G079196_T01 (Zea mays), 5'ss of exon 6
AGATGGCACAGATGACCATAAGAAAGGAACCCAACTTTTGGAGGTATATGCTGTAGAGATTCAAATGTACACTGAGACCAAGAACAACAAAAAACTTAAGgtcagg---atttgttt---tatagaagaaattcttgttcttgcatgacttaagtagttaagtaattatgtcttttcaaattcttttattgtgtttgcctgcaatt
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AGATGGTTCTGATGATCAAAAGAAAGGCACACAACTTTTGGAAGTCTATGCTATTGAAATACAAATGTACACTGAAACAAAGAATAATAAAAAGCTTAAGgtaagacatccttgtttgcctattcgcaagtgactctttggtgggtaatatcccaagttaaattatcattgtgaattatgatgcattatttctttttttt------
upper sequence: GLYMA19G17660.3 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G132804_T01 (Zea mays), 5'ss of exon 6
AGATGGCACAGATGACCATAAGAAAGGAACCCAACTTTTGGAGGTATATGCTGTAGAGATTCAAATGTACACTGAGACCAAGAACAACAAAAAACTTAAGgtcagg---atttgttt-tatagaagaaattcttgttcttgcatgacttaagtagttaagtaattatgtcttttcaaattcttttattgtgtttgcctgcaatt-
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AGATGGTTCTGATGATCAAAAGAAAGGCACACAGCTTTTGGAAGTCTATGCTATTGAAATCCAAATGTACACTGAAACAAAGAATAATAAAAAGCTTAAGgtatggcgtccttgtttgcccatttgcaagtgactctttggtgggtattatcttattaaat-----tatccttgtgaattgtgatgatgtatgtttctgaaaaat
upper sequence: GLYMA19G17660.3 (Glycine max), 5'ss of exon 6
lower sequence: Vv08s0040g00430.t01 (Vitis vinifera), 5'ss of exon 6
AGATGGCACAGATGACCATAAGAAAGGAACCCAACTTTTGGAGGTATATGCTGTAGAGATTCAAATGTACACTGAGACCAAGAACAACAAAAAACTTAAGgtcaggatttgttttatagaagaaattcttgttcttgcatgacttaagtagttaagtaattatgtct--tttcaaattcttttattgtgtttgcctgcaatt
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AGATGGTACAGATGATCAAAAGAAAGGAACCCAACTTTTGGAAGTATATGCAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAGgtcagggtttcttgaat-gtttgtttccatattgatttgtaaatcatttttttcagtaattttgtatatttctatagtatttaagttccatgagttaaaat-
upper sequence: GLYMA19G17660.3 (Glycine max), 5'ss of exon 6
lower sequence: PP1S124_47V6.1 (Physcomitrella patens), 5'ss of exon 6
AGATGGCACAGATGACCATAAGAAAGGAACCCAACTTTTGGAGGTATATGCTGTAGAGATTCAAATGTACACTGAGACCAAGAACAACAAAAAACTTAAGgtcag---gatttgttttatagaagaaattcttgttcttgcatgacttaagtagttaagtaattatgtcttttcaaattcttttattgtgtttgcctg-caatt
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AGATGGTACAGATGACCAGAAGAAGGGCACACAATTGCTGGAGGTGTATGCGATAGAGATTCAGATGTATACAGAGACCAAGAACAACAAGAAGCTCAAGgttatttcaactggctccctgttatagtctatcgcattc---tgcttagacgaaacaatttattatgttcttttag-ctctcccactataaatctttaatcatt
upper sequence: GLYMA19G17660.3 (Glycine max), 5'ss of exon 6
lower sequence: PP1S105_216V6.1 (Physcomitrella patens), 5'ss of exon 6
AGATGGCACAGATGACCATAAGAAAGGAACCCAACTTTTGGAGGTATATGCTGTAGAGATTCAAATGTACACTGAGACCAAGAACAACAAAAAACTTAAGgtcaggatttgttttatagaagaaattcttgttcttgcatgacttaagta--gttaagtaattatgtcttttcaaattcttttattgtgtttgcctgcaatt------------------------------------------------------------------------------------------
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AGATGGCACAGATGACCAGAAGAAGGGCACGCAGCTGCTGGAAGTTTATGCGATTGAAATTCAGATGTATACAGAGACTAAGAACAACAAAAAACTTAAGgttag--ttcaagtgaaaccttcaattgaaattct---gtgacctaagctctgctaccagatctagtggaactaaaaaaattaattattcattcttgacattgtagcaataggatctcgaagtcgttagtgttggaatctcgtatattggtataagagttagtatttattctttttagcgtgaaccttgcag
upper sequence: GLYMA19G17660.3 (Glycine max), 5'ss of exon 6
lower sequence: PP1S90_192V6.1 (Physcomitrella patens), 5'ss of exon 6
AGATGGCACAGATGACCATAAGAAAGGAACCCAACTTTTGGAGGTATATGCTGTAGAGATTCAAATGTACACTGAGACCAAGAACAACAAAAAACTTAAGgtcag---gatttgttttatagaagaaattcttgttcttgcatgacttaagtagttaagtaattatgtcttttcaaattcttttattgtgtttgcctgcaatt-------------------------------------------------------------------------------------------------
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AGATGGTACAGATGATCAGAAGAAGGGCACACAATTGCTCGAGGTTTATGCGATAGAGATTCAGATGTATACAGAGACCAAGAACAACAAGAAGCTCAAGgttttttcaaccagattcccacgtgcagtctaccttgttt--tgatttgatgaaacaatttat-at-tctgtttaagccgtgttatcataggatctctcaacccttcattttcggtgtcaaaatttatagttgtgggtaagtggttaatatgtttactttttagggtttgtgctgattctctctggtataaactttgcag
upper sequence: GLYMA19G17660.3 (Glycine max), 5'ss of exon 6
lower sequence: EFJ29478 (Selaginella moellendorffii), 5'ss of exon 6
AGATGGCACAGATGACCATAAGAAAGGAACCCAACTTTTGGAGGTATATGCTGTAGAGATTCAAATGTACACTGAGACCAAGAACAACAAAAAACTTAAGgtcaggatttgttttatagaagaaattcttgttcttgcatgacttaagtagttaagtaattatgtcttttcaaattcttttattgtgtttgcctgcaatt
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AGATGGCTCTGATGATCAGAAGAAAGGAACTCAGCTTCTGGAAGTATACGCCATTGAGATTCAGATGTACACGGAGACAAAGAACAACAAGAAGCTAAAGgtatctatgcagttctttttatgatattttgctgaacctcggcctcag----------------------------------------------------
upper sequence: GLYMA19G17660.3 (Glycine max), 5'ss of exon 6
lower sequence: EFJ28052 (Selaginella moellendorffii), 5'ss of exon 6
AGATGGCACAGATGACCATAAGAAAGGAACCCAACTTTTGGAGGTATATGCTGTAGAGATTCAAATGTACACTGAGACCAAGAACAACAAAAAACTTAAGgtcaggattt-gttttatagaagaaattcttgttcttgcatgacttaagtagttaagtaattatgtcttttcaaattcttttattgtgtttgcctgcaatt
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AGATGGCTCTGATGATCAGAAGAAAGGAACTCAGCTTCTGGAAGTATACGCCATTGAGATTCAGATGTACACGGAGACAAAGAACAACAAGAAGCTAAAGgtatctatgcagttttttttatgatattct-actgaacctcggcctcag----------------------------------------------------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|15285921|gb|BI469812.1|BI469812EST: CTGTAGAGATTCAAATGTACACTGAGACCAAGAACAACATTTTACTTAAG CAACTTTACCAGAAAGCACTCACTATTAAGTCTTTAATTCCCCATCCAAGG
genomic: CTGTAGAGATTCAAATGTACACTGAGACCAAGAACAACAAAAAACTTAAGgtcaggattt ... ttaaatgcagCAACTTTACCAGAAAGCACTCACTATTAAGTCAGCAATTCCCCATCCAAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGATGGCACAGATGACCATAAGAAAGGAACCCAACTTTTGGAGGTATATGCTGTAGAGATTCAAATGTACACTGAGACCAAGAACAACAAAAAACTTAAGgtcaggatttgttttatagaagaaattcttgttcttgcatgacttaagtagttaagtaattatgtcttttcaaattcttttattgtgtttgcctgcaatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC