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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcaactgacttggaacaagtgcaaataataaaccaaagacacactaaatgagttagacaaaatgtcttgtgctttgtcatctaacattgtggtaatgcagGTCTCTACCAGTGGGATACCTGATGACGAAAGGAAGATCTCGATGGATTCAGTGAATCCTAAATATATACTGAGGAACTATCTCTGCCAGACTGCAATTG

Basic information

species Glycine max
transcript GLYMA20G39090.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G39090.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os06g21600.1 (Oryza sativa), 3'ss of exon 7
-tcaactgacttggaacaagtgcaaataataaaccaaagacacacta-aatgagttagacaaaatgtcttgtgctttgtcatctaacattgtggtaatgcagGTCTCTACCAGTGGGATACCTGATGACGAAAGGAAGATCTCGATGGATTCAGTGAATCCTAAATATATACTGAGGAACTATCTCTGCCAGACTGCAATTG
 ||||     |      || | ||  |   | |  || ||||   |  || |||         |  || |     |  | || ||   || |  |  || || |   | | |||||  | ||||| || ||||||||     | ||| | || || ||||| || ||| | ||  |||||||||||||||||||||||||||
ttcaaacatttatagcgaactacagctttgaga--aacgacaagttgtaaagaggctatttggacatccttgatctaatgatatatttttttctttgtgaagTTGGTTTCAAGTGGCGTTCCTGACGAAGAAAGGAAAGCTGCCATGAACTCTGTTAATCCAAAGTATGTTCTTCGGAACTATCTCTGCCAGACTGCAATTG
















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|20814084|gb|BQ298562.1|BQ298562
EST:     AGGAAGCATGGACCAGTTGGTTGAAAGCTTATATACATGAG                         GTCTCTACCAGTGGGATACCTGATGACGAAAGGAAGATCTCGATGGATTCA
genomic: AGGAAGCATGGACCAGTTGGTTGAAAGCTTATATACATGAGgtacagttat ... ggtaatgcagGTCTCTACCAGTGGGATACCTGATGACGAAAGGAAGATCTCGATGGATTCA
EST: gi|15814395|gb|BI786670.1|BI786670
EST:     AAGAGCGTAAGGAAGCATGGACCAGTTGGTTGAAAGCTTATATACATGAG                         GTCTCTACCAGTGGGATACCTGATGACGAAAGGAAGATCTCGATGGATTCA
genomic: AAGAGCGTAAGGAAGCATGGACCAGTTGGTTGAAAGCTTATATACATGAGgtacagttat ... ggtaatgcagGTCTCTACCAGTGGGATACCTGATGACGAAAGGAAGATCTCGATGGATTCA
EST: gi|18730535|gb|BM525932.1|BM525932
EST:     AAGAGCGTAAGGAAGCATGGACCAGTTGGTTGAAAGCTTATATACATGAG                         GTCTCTACCAGTGGGATACCTGATGACGAAAGGAAGATCTCGATGGATTCA
genomic: AAGAGCGTAAGGAAGCATGGACCAGTTGGTTGAAAGCTTATATACATGAGgtacagttat ... ggtaatgcagGTCTCTACCAGTGGGATACCTGATGACGAAAGGAAGATCTCGATGGATTCA
EST: gi|7692656|gb|AW760757.1|AW760757
EST:     AAGAGCGTAAGGAAGCATGGACCAGTTGGTTGAAAGCTTATATACATGAG                         GTCTCTACCAGTGGGATACCTGATGACGAAAGGAAGATCTCGATGGATTCA
genomic: AAGAGCGTAAGGAAGCATGGACCAGTTGGTTGAAAGCTTATATACATGAGgtacagttat ... ggtaatgcagGTCTCTACCAGTGGGATACCTGATGACGAAAGGAAGATCTCGATGGATTCA
EST: gi|22928662|gb|BU545801.1|BU545801
EST:     AAGAGCGTAAGGAAGCATGGACCAGTTGGTTGAAAGCTGATATACATGAG                         GTCTCTACCAGTGGGATACCTGATGACGAAAGGAAGATCTCGATGGATTCA
genomic: AAGAGCGTAAGGAAGCATGGACCAGTTGGTTGAAAGCTTATATACATGAGgtacagttat ... ggtaatgcagGTCTCTACCAGTGGGATACCTGATGACGAAAGGAAGATCTCGATGGATTCA
EST: gi|23725338|gb|BU760621.1|BU760621
EST:     AAGAGCGTAAGGAAGCATGGACCAGTTGGTTGAAAGCTTATATACATGAG                         GTCTCTACCAGTGGGATACCTGATGACGAAAGGAAGATCTCGATGGATTCA
genomic: AAGAGCGTAAGGAAGCATGGACCAGTTGGTTGAAAGCTTATATACATGAGgtacagttat ... ggtaatgcagGTCTCTACCAGTGGGATACCTGATGACGAAAGGAAGATCTCGATGGATTCA
EST: gi|15287927|gb|BI471818.1|BI471818
EST:     AAGAGCGTAAGGAAGCATGGACCAGTTGGTTGAAAGCTTATATACATGAG                         GTCTCTACCCGTGGGATACCTGATGACGAAAGGAAGATCTCGATGGATTCA
genomic: AAGAGCGTAAGGAAGCATGGACCAGTTGGTTGAAAGCTTATATACATGAGgtacagttat ... ggtaatgcagGTCTCTACCAGTGGGATACCTGATGACGAAAGGAAGATCTCGATGGATTCA
EST: gi|17963094|gb|BM269847.1|BM269847
EST:     AAGAGCGTAAGGAAGCATGGACCAGTTGGTTGAAAGCTTATATACATGAG                         GTCTCTACCAGTGGGATACCTGATGACGAAAGGAAGATCTCGATGGATTCA
genomic: AAGAGCGTAAGGAAGCATGGACCAGTTGGTTGAAAGCTTATATACATGAGgtacagttat ... ggtaatgcagGTCTCTACCAGTGGGATACCTGATGACGAAAGGAAGATCTCGATGGATTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatgagttagacaaaatgtcttgtgctttgtcatctaacattgtggtaatgcagGTCTCTACCAGTGGGATACCTGATGACGAAAGGAAGATCTCGATGGATTCAGTGAATCCTAAATATATACTGAGGAACTATCTCTGCCAGACTGCAATTG
                                 atctaac  putative branch site (score: 2)
           acaaaat  TA-rich tract