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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgcaacttaatttaccagttttcttaatgtttaatttgtctattttaattccatgttaattagtgtaaaaagttttttgctaactaatactaataactctttttttttttgtgttgtgcagTCTTTGGGGTGGTTCTGTTCTCAATTTGGGGACCAAGAAGCATAAGGATAAGTACTTTGATGGGATTGATAACTTGGACTACCCTGGTTGTTTTGCTATG

Basic information

species Glycine max
transcript GLYMA05G31390.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G31390.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G419782_T02 (Zea mays), 3'ss of exon 1
gtacgcaacttaatttaccagttttcttaatgtttaatttgtctattttaattccatgttaattag-tgtaaaaagttttttgctaactaatactaataactctttttttttttgtgttgtgcagTCTTTGGGGTGGTTCTGTTCTCAATTTGGGGACCAAGAAGCATAAGGATAAGTACTTTGATGGGATTGATAACTTGGACTACCCTGGTTGTTTTGCTATG
                     | | |||   | |||| || | ||    |  |   |  |   ||  ||  | |||| ||   ||  |  ||| || ||||| |   |  ||     |  |||||||| ||||||||||||||  | ||| | || ||||| ||||| |  ||||||||||||||||| ||||| || ||||| || || ||||||||||| |||
---------------------tgtccttctggattaaattttgtagcc-agctatgtactctctatctgatagaagtcttagtctctcatatagtattaactttacctccttgc---taatgcagTCTCTGGGGTGGTTCTGTCATAAATCTAGGAACCAAAAAGCACAGAGATAAGTACTTTGATGGAATTGACAATTTGGATTATCCAGGTTGTTTTGCAATG

upper sequence: GLYMA05G31390.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G045376_T01 (Zea mays), 3'ss of exon 1
gtacgcaacttaatttaccagttttcttaatgtttaatttgtctattttaattccatgttaattag-tgtaaaaagttttttgctaactaatactaataactctttttttttttgtgttgtgcagTCTTTGGGGTGGTTCTGTTCTCAATTTGGGGACCAAGAAGCATAAGGATAAGTACTTTGATGGGATTGATAACTTGGACTACCCTGGTTGTTTTGCTATG
                     | | |||   | |||| || | ||    |  |   |  |   ||  ||  | |||| ||   ||  |  ||| || ||||| |   |  ||     |  |||||||| ||||||||||||||  | ||| | || ||||| ||||| |  ||||||||||||||||| ||||| || ||||| || || || |||||||| |||
---------------------tgtccttctggattaaattttgtagcc-agctatgtactctctatctgatagaagtcttagtctctcatatagtattaactttacctccttgc---taatgcagTCTCTGGGGTGGTTCTGTCATAAATCTAGGAACCAAAAAGCACAGAGATAAGTACTTTGATGGAATTGACAATTTGGATTATCCAGGCTGTTTTGCAATG

upper sequence: GLYMA05G31390.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G445791_T01 (Zea mays), 3'ss of exon 1
gtacgcaacttaatttaccagttttcttaatgtttaatttgtctattttaattccatgttaattag-tgtaaaaagttttttgctaactaatactaataactctttttttttttgtgttgtgcagTCTTTGGGGTGGTTCTGTTCTCAATTTGGGGACCAAGAAGCATAAGGATAAGTACTTTGATGGGATTGATAACTTGGACTACCCTGGTTGTTTTGCTATG
                     | | |||   | |||| || | ||    |  |   |  |   ||  ||  | |||| ||   ||  |  ||| || ||||| |   |  ||     |  |||||||| ||||||||||||||  | ||| | || ||||| ||||| |  ||||||||||||||||| ||||| || ||||| || || |              
---------------------tgtccttctggattaaattttgtagcc-agctatgtactctctatctgatagaagtcttagtctctcatatagtattaactttacctccttgc---taatgcagTCTCTGGGGTGGTTCTGTCATAAATCTAGGAACCAAAAAGCACAGAGATAAGTACTTTGATGGAATTGACAATTTGGATTATCCAG--------------

upper sequence: GLYMA05G31390.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G099666_T01 (Zea mays), 3'ss of exon 1
gtacgcaacttaatttaccagttttcttaatgtttaatttgtctattttaattccatgttaattag-tgtaaaaagttttttgctaactaatactaataactctttttttttttgtgttgtgcagTCTTTGGGGTGGTTCTGTTCTCAATTTGGGGACCAAGAAGCATAAGGATAAGTACTTTGATGGGATTGATAACTTGGACTACCCTGGTTGTTTTGCTATG
                     | | |||   | |||| || | ||    |  |   |  |   ||  ||  |  ||| ||   ||  |  ||| || ||||| |   |  ||     |  |||||||| ||||||||||||||  | ||| | || ||||| ||||| |  ||||||||||||||||| ||||| || ||||| || || || ||||| || |||
---------------------tgtccttctagattaaattttgtagcc-agctatgtactctctatctgatagcagtcttagtctctcatatagtactaactttacctccttgc---taatgcagTCTCTGGGGTGGTTCTGTCATAAATCTAGGAACCAAAAAGCACAGAGATAAGTACTTTGATGGAATTGACAATTTGGATTATCCAGGCTGTTTCGCAATG

upper sequence: GLYMA05G31390.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv00s0662g00010.t01 (Vitis vinifera), 3'ss of exon 1
gtacgcaacttaatttaccagttttcttaatgtttaatttgtctattttaattccatgttaattagtgtaaaaagttttttgctaactaatactaataactctttttttttttgtgttgtgcagTCTTTGGGGTGGTTCTGTTCTCAATTTGGGGACCAAGAAGCATAAGGATAAGTACTTTGATGGGATTGATAACTTGGACTACCCTGGTTGTTTTGCTATG
                 | | |||  |   | |  || |||  ||| | |   |  || || ||  |  ||| |  | | |   | |  | |||    ||| || ||  |||| ||   |||||||||||||| || || || ||||| || || || || || |||||||||||||||| |||||  ||||| || ||||| || || || ||||||||||||
----------------gcaaatttgttctctatgaaaattga-tatgtcatacctttgata-tttttacaaataaatgtgtctaatcctacactg---acttttgttgcttttatg---tgcagTCTTTGGGGAGGCTCCGTGCTCAACTTAGGAACTAAAAAACATAAGGATAAGTACTATGATGTTATTGACAATTTGGAGTATCCAGGCTGTTTTGCTATG

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|209714462|gb|BW684851.1|BW684851
EST:     GTTGGAAGCGTTGACATGTCGCTCGGGATCAAGATGGGGGTCCAGTATAG                         TCTTTGGGGTGGTTCTGTTCTCAATTTGGGGACC
genomic: GTTGGAAGCGTTGACATGTCGCTCGGGATCAAGATGGGGGTCCAGTATAGgtacgcaact ... tgttgtgcagTCTTTGGGGTGGTTCTGTTCTCAATTTGGGGACC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaagttttttgctaactaatactaataactctttttttttttgtgttgtgcagTCTTTGGGGTGGTTCTGTTCTCAATTTGGGGACCAAGAAGCATAAGGATAAGTACTTTGATGGGATTGATAACTTGGACTACCCTGGTTGTTTTGCTATG
                        taataac  putative branch site (score: 1)
                              ctctttttttttttgt  CT-rich tract
              taactaatactaataa  TA-rich tract