Sequence
atgc intronic sequence ATGC exonic sequenceAAATGTGCAATTTCTTTCTGCACCAATCAAGGATGGGACTACTGGAACAGTTATAGTTCTCACAACTCCAGATGCCCAGCGCACAATGCTTGCATATCAGgtttaatatgctataaatggcatctttcagtatctattcagtctttatatgctatttcaggatattttaggcattttgaagtttcttttacctttattggctaataccatgagctctatgaatagtgaagatgctaatatttctgtactctggtgtcag
Basic information
species | Glycine max |
transcript | GLYMA12G01920.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G01920.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os10g42240.1 (Oryza sativa), 5'ss of exon 3
AAATGTGCAATTTCTTTCTGCACCAATCAAGGATGGGACTACTGGAACAGTTATAGTTCTCACAACTCCAGATGCCCAGCGCACAATGCTTGCATATCAGgtttaatatgctataaatggcatctttcagtatctattcagtctttatatgctatttcaggatattttaggcattttgaagtttcttttacctttattggctaataccatgagctctatgaatagtgaagatgctaatatttctgtactctggtgtcag
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TAATTTGCATTTCTTGTCTAAGCCGGTCAAAGATGGGACTACTGGAACTGTGATTGTTCTAACAACTCCAGATGCACAACGAACTATGCTTGCATATCAGgtc--agttgatatgtttg-tacttcagggttgttattcccccttctagggacttctgttgcaatatcagac----taaa----ttttaatttttgaagatgagtagttta------------------------------------------------
upper sequence: GLYMA12G01920.1 (Glycine max), 5'ss of exon 3
lower sequence: AT4G27600.1 (Arabidopsis thaliana), 5'ss of exon 3
AAATGTGCAATTTCTTTCTGCACCAATCAAGGATGGGACTACTGGAACAGTTATAGTTCTCACAACTCCAGATGCCCAGCGCACAATGCTTGCATATCAGgtttaatatgctataaatggcatctttcagtatctattcagtctttatatgctatttcaggatattttaggcattttgaagtttcttttacctttattggctaataccatgagctctatgaatagtgaagatgctaatatttctgtactctggtgtcag
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AAATGTAAATTTTCTTTCTGCTCCAATCAAGGACGGAACAACAGGAACAGTGATAGTTCTCACAACTCCTGATGCACAACGTACTATGCTTGCATATCAGgtaggatttctgat-----------ctcagcaaat-tgctcttgcaatgtattactattcaaaatgtaagggtttccctttcttcttccacaagagtcgagcaaagt--ttaac---------------------------------------------
upper sequence: GLYMA12G01920.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv16s0039g01580.t01 (Vitis vinifera), 5'ss of exon 3
AAATGTGCAATTTCTTTCTGCACCAATCAAGGATGGGACTACTGGAACAGTTATAGTTCTCACAACTCCAGATGCCCAGCGCACAATGCTTGCATATCAGgtttaatatgctataaatggca--tctttcagtatctattcagtctttatatgctattt-caggatattttaggcattttgaagtttcttttacctttattggctaataccatgagctctatgaatagtgaagatgctaatatttctgtactctggtgtcag
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AAATGTGAATTTTCTCTCTGCACCTGTTAAGGATGGGACAACGGGGACAGTGATAGTTCTCACGACTCCAGATGCTCAGCGCACGATGCTTGCATATCAGgtttaatctgttatggaaaacagttttttgagaatttattctgaaaacaggttataagtgtacagtacctttatagagaacaagttgagaaaattattat--------------------------------------------------------------
upper sequence: GLYMA12G01920.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ23286 (Selaginella moellendorffii), 5'ss of exon 3
AAATGTGCAATTTCTTTCTGCACCAATCAAGGATGGGACTACTGGAACAGTTATAGTTCTCACAACTCCAGATGCCCAGCGCACAATGCTTGCATATCAGgtttaatatgctataaatggcatctttcagtatctattcagtctttatatgctatttcaggatattttaggcattttgaagtttcttttacctttattggctaataccatgagctctatgaatagtgaagatgctaatatttctgtactctggtgtcag
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CAACGTACACTTTCTATCATCCCCGATGGTCAGGGGCACGACTGGAACAGTGATCGTTCTCACAACACCGGATGCCCAGCGAACTATGCTTTCCTACCAGgtgaaaaa----aaaaagaaccattttttgttgttgttagatccttgaa----accacag---------------------------------------------------------------------------------------------------
upper sequence: GLYMA12G01920.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ20287 (Selaginella moellendorffii), 5'ss of exon 3
AAATGTGCAATTTCTTTCTGCACCAATCAAGGATGGGACTACTGGAACAGTTATAGTTCTCACAACTCCAGATGCCCAGCGCACAATGCTTGCATATCAGgtttaatatgctataaatggcatctttcagtatctattcagtctttatatgctatttcaggatattttaggcattttgaagtttcttttacctttattggctaataccatgagctctatgaatagtgaagatgctaatatttctgtactctggtgtcag
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CAACGTACACTTTCTATCATCCCCGATGGTCAGGGGCACGACTGGAACAGTGATCGTTCTCACAACACCGGATGCCCAGCGAACTATGCTTTCCTACCAGgtg-aaaaaacaaagaac--catgttttttttgttgttagatccttgaa----accacag---------------------------------------------------------------------------------------------------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|19270636|gb|BM886892.1|BM886892EST: TCCAGATGCCCAGCGCACAATGCTTGCATATCAG GGCACATCTTCAACTGTTAACTATGATGCATCCTTAGCTAATGCAGTTTCC
genomic: TCCAGATGCCCAGCGCACAATGCTTGCATATCAGgtttaatatg ... ctggtgtcagGGCACATCTTCAACTGTTAACTATGATGCATCCTTAGCTAATGCAGTTTCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAATGTGCAATTTCTTTCTGCACCAATCAAGGATGGGACTACTGGAACAGTTATAGTTCTCACAACTCCAGATGCCCAGCGCACAATGCTTGCATATCAGgtttaatatgctataaatggcatctttcagtatctattcagtctttatatgctatttcaggatattttaggcattttgaagtttcttttacctttattggctaataccatgagctctatgaatagtgaagatgctaatatttctgtactctggtgtcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG