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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAGCACATGAAAAAATTGGTGTAATTGATTCACAATGGATTGTTCATCAAGTAATTCCTTCTCTTGGGAACCAGgttagacatcactagcttacaatatagttagagccacttattttctttgatgatatcattttaaattgagcatgtttttatatatttattgggagtatat...

Basic information

species Glycine max
transcript GLYMA13G39990.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G39990.1 (Glycine max), 5'ss of exon 13
lower sequence: LOC_Os01g73970.1 (Oryza sativa), 5'ss of exon 13
CCAGCACATGAAAAAATTGGTGTAATTGATTCACAATGGATTGTTCATCAAGTAATTCCTTCTCTTGGGAACCAGgttagacatcactagcttacaatatagttagagccacttattttctttgatgatatcattttaaattgagcatgtttttatatatttattgggagtatat--
|| |||||||| ||||| |||||  ||||||| ||||||||||| ||||||||  |||||||||||||||||||||| ||  ||||  ||  |   || ||   ||| | |  |     |   ||  |  |  |  | |||       || ||| | | ||| |||  | |  |   
CCTGCACATGAGAAAATCGGTGTCGTTGATTCCCAATGGATTGTACATCAAGTGGTTCCTTCTCTTGGGAACCAGgtaagg-atcaaaagaatcacatctatagagaacgagatg----cccggaaaagtttgtgcttaat-------gtctttgtct-tttgttgaaaattcacag

upper sequence: GLYMA13G39990.1 (Glycine max), 5'ss of exon 13
lower sequence: LOC_Os05g01760.1 (Oryza sativa), 5'ss of exon 13
CCAGCACATGAAAAAATTGGTGTAATTGATTCACAATGGATTGTTCATCAAGTAATTCCTTCTCTTGGGAACCAGgt----tagacatcactagcttacaatatagttagagccacttattttctttgatgatatcattttaaattgagcatgtttttatatatttattgggagtatat
|| || || ||||| ||||| ||  |||||||||| ||||||||||| |||||  |||| ||||| |||||||||||     |||||||      ||    |||  ||  | |||  | ||| | |   | |  | ||  | | ||||  | ||||||  ||    |     |  |   
CCTGCTCACGAAAAGATTGGGGTTGTTGATTCACAGTGGATTGTTCACCAAGTGGTTCCATCTCTCGGGAACCAGgtaaatgagacatcttcctttttatttatttttccaaccaagtgtttgcataactaaagt-atgctcatttga-tacgtttttgcatccaaacgattaacag--

upper sequence: GLYMA13G39990.1 (Glycine max), 5'ss of exon 13
lower sequence: GRMZM2G006507_T01 (Zea mays), 5'ss of exon 1
CCAGCACATGAAAAAATTGGTGTAATTGATTCACAATGGATTGTTCATCAAGTAATTCCTTCTCTTGGGAACCAGgttagac---atcactagcttacaatatagttagagccacttattttctttgatgatatcattttaaattga-gcatgtttttatatatttattgggagtatat-----------------------------------------------------------------------
            || ||||| ||  ||||| | ||||||||||||||||||| | ||||||| |||||||||||||  |      || |        ||  || |  || |  |      | |||  |  || | ||||    ||    ||   | |||||| |  | ||   |  | |                                                                       
-----------GAAGATTGGAGTTGTTGATGCTCAATGGATTGTTCATCAAGCAGTTCCTTCACTTGGGAACCAGGGCAAGTCAGATAATGGAAGAGCACCATGGGAAGGGgtaaggtggtacttgtactatgttatttggttttttcacagtatattatatttcaaatgcatgatttttactgctacggcatcaactatgtatccatttggattttctttaattgtctacacttaattgtccaccatag

upper sequence: GLYMA13G39990.1 (Glycine max), 5'ss of exon 13
lower sequence: GRMZM5G801369_T03 (Zea mays), 5'ss of exon 13
CCAGCACATGAAAAAATTGGTGTAATTGATTCACAATGGATTGTTCATCAAGTAATTCCTTCTCTTGGGAACCAGgttagacatcactagct-tacaatatag--ttagagccacttattttctttgatgatatcattttaaattgagcatgtttttatatatttattgggagtatat
||||| ||||| |||||||| ||  |||| || || ||||||||||||||||| || ||||| ||||| ||||||||  | ||  ||||    ||| || |    || | ||    ||    | | |||    | | ||   ||   | |   |     ||   | |  |        
CCAGCCCATGAGAAAATTGGAGTGGTTGACTCCCAGTGGATTGTTCATCAAGTCATCCCTTCGCTTGGTAACCAGgtatgccag-actattggtaccatctcacttttgtgcacggtacacacatagatacagtgaattctgatcctgtagcatcc---attcctgtcag--------

upper sequence: GLYMA13G39990.1 (Glycine max), 5'ss of exon 13
lower sequence: Vv06s0004g02700.t01 (Vitis vinifera), 5'ss of exon 13
CCAGCACATGAAAAAATTGGTGTAATTGATTCACAATGGATTGTTCATCAAGTAATTCCTTCTCTTGGGAACCAGgttagacatcactagcttacaatatagttagagccacttattttc--tttgatgatatcattttaaattgagcatgtttttatatatttattgggagtatat
|| |||||||| ||||| |||||  |||||||||| |||||| ||||| ||||| | ||||||||||||| ||| || || ||| | |        |||| || | |     || || |   ||| ||||     |   |        |||   ||   | || | |||   | | |
CCTGCACATGAGAAAATCGGTGTGGTTGATTCACAGTGGATTATTCATAAAGTAGTACCTTCTCTTGGGAGCCAAgtaagtcat-atttttgaggcatattgtgataaaattttgttgtgaatttcatgaatctgtgccatgcatttgatgcactttgttgttgactggct-tgttt

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|31464325|gb|CD406353.1|CD406353
EST:     TTGATTCACAATGGATTGTTCATCAAGTAATTCCTTCTCTTGGGAACCAG                         GGAGAGTCTGACAAAGGAAAAGGGCCAAGGGATTCG
genomic: TTGATTCACAATGGATTGTTCATCAAGTAATTCCTTCTCTTGGGAACCAGgttagacatc ... taattttcagGGAGAGTCTGACAAAGGAAAAGGGCCAAGGGATTCG
EST: gi|209728921|gb|BW654988.1|BW654988
EST:     TTGATTCACAATGGATTGTTCATCAAGTAATTCCTTCTCTTGGGAACCAG                         GGAGAGTCTGACAAAGGAAAAGGGCCAAGGGATTCG
genomic: TTGATTCACAATGGATTGTTCATCAAGTAATTCCTTCTCTTGGGAACCAGgttagacatc ... taattttcagGGAGAGTCTGACAAAGGAAAAGGGCCAAGGGATTCG
EST: gi|20449491|gb|BQ253615.1|BQ253615
EST:     TTGATTCACAATGGATTGTTCATCAAGTAATTCCTTCTCTTGGGAACCAG                         GGAGAGTCTGACAAAGGAAAAGGGCCAAGGGATTCG
genomic: TTGATTCACAATGGATTGTTCATCAAGTAATTCCTTCTCTTGGGAACCAGgttagacatc ... taattttcagGGAGAGTCTGACAAAGGAAAAGGGCCAAGGGATTCG
EST: gi|12691502|gb|BG157838.1|BG157838
EST:     TTGATTCACAATGGATTGTTCATCAAGTAATTCCTTCTCTTGGGAACCAG                         GGAGAGTCTGACAAAGGAAAAGGGCCAAGGGATTCT
genomic: TTGATTCACAATGGATTGTTCATCAAGTAATTCCTTCTCTTGGGAACCAGgttagacatc ... taattttcagGGAGAGTCTGACAAAGGAAAAGGGCCAAGGGATTCG
EST: gi|10233381|gb|BE802269.1|BE802269
EST:     TTGATTCACAATGGATTGTTCATCAAGTAATTCCTTCTCTTGGGAACCAG                         GGAGAGTCTGACAAAGGAAAAGGGCCAAGGGATTCG
genomic: TTGATTCACAATGGATTGTTCATCAAGTAATTCCTTCTCTTGGGAACCAGgttagacatc ... taattttcagGGAGAGTCTGACAAAGGAAAAGGGCCAAGGGATTCG
EST: gi|10234562|gb|BE803450.1|BE803450
EST:     TTGATTCACAATGGATTGTTCATCAAGTAATTCCTTCTCTTGGGAACCAG                         GGAGAGTCTGACAAAGGAAAAGGGCCAAGGGATTCG
genomic: TTGATTCACAATGGATTGTTCATCAAGTAATTCCTTCTCTTGGGAACCAGgttagacatc ... taattttcagGGAGAGTCTGACAAAGGAAAAGGGCCAAGGGATTCG