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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacttaatagtgttactgttaatcagtgtttctctcctacaaggtataaaattgtttatattaatgaatgctacaattttgtaatctgcagCATATAACAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGCAATGCCTATTGATGCTCAGGATC

Basic information

species Glycine max
transcript GLYMA09G28650.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G28650.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os06g34690.1 (Oryza sativa), 3'ss of exon 6
--gtaacttaatagtgttactgttaatcagtgtttctctcctacaaggtataaaattgtttatattaatgaatgctacaattttgtaatctgcagCATATAACAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGCAATGCCTATTGATGCTCAGGATC
   |  ||| ||  |  ||   | |    |||||  |  | |    | | |   |  || | |  | |  ||   |     | | | || | ||||||| | ||||||| | ||||||||| | ||||||||||||||||||||||||| | |||| |   | || |
gtattgcttgatcattgta---tcagatggtgttatttcctttgttgatttttta--gtctgttctga--aacatttagtgtctctcattttcagCATACACCAAAGCTCTTGAGGATGCTTTAGCTGTCCTTGACAAAATTGCAATGCATGTTGACGTGAATGACC

upper sequence: GLYMA09G28650.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G069765_T03 (Zea mays), 3'ss of exon 6
gtaacttaatagtgttactgt-taatcagtgtttctctcctacaaggtataaa--attgtttatat--taa----tgaatgctacaattttgtaatctgcagCATATAACAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGCAATGCCTATTGATGCTCAGGATC----------------------------
         ||   || || | |  |||||  | | ||     | ||||  |    || |||||||  |||    ||||   |  | |||| | |||| ||||||||| ||||||  | || |||||||||||||| |||||||||||||||||| || ||||||   | ||||                            
--------gtaagattcctttattctcagtactgcactttactagggtaatacctgttttttatatcttaacttctgaaacttgtatttttcttatcttcagCATATACCAAAGCGCTTGATGATGCTATTGCTGTACTTGACAAAATTGCAATGGCTGTTGATGTGAATGATCGTAAGTTTACAGTGAACATATATTTTGT

upper sequence: GLYMA09G28650.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G069765_T05 (Zea mays), 3'ss of exon 6
gtaacttaatagtgttactgt-taatcagtgtttctctcctacaaggtataa--aattgtttata--ttaa----tgaatgctacaattttgtaatctgcagCATATAACAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGCAATGCCTATTGATGCTCAGGATC
         ||   || || | |  |||||  | | ||     | ||||  |    || ||||||  ||||    ||||   |  | |||| | |||| ||||||||| ||||||  | || |||||||||||||| |||||||||||||||||| || ||||||   | ||||
--------gtaagattcctttattctcagtactgcactttactagggtaatacctgttttttatatcttaacttctgaaacttgtatttttcttatcttcagCATATACCAAAGCGCTTGATGATGCTATTGCTGTACTTGACAAAATTGCAATGGCTGTTGATGTGAATGATC

upper sequence: GLYMA09G28650.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G175510_T01 (Zea mays), 3'ss of exon 6
-----gtaacttaat----agtgttactgttaatcagtgtttctctcctacaaggtataaaattgtttatattaatgaatgctacaattttgtaatctgcagCATATAACAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGCAATGCCTATTGATGCTCAGGATC
      |  ||| ||    |||  | | ||| |  || ||    ||         |     ||   || | ||   |||  ||   ||||| | |||| ||||||| | ||||||  | || |||||||||||||| ||||||||||||||||||||  ||||||   | ||||
gtaagattcctttattctcagtactgcagtttactagggtaatacttgacttttattcttgatctcttgtcttctggaa--cttatattttctcatcttcagCATACACCAAAGCGCTTGATGATGCTATTGCTGTACTTGACAAAATTGCAATGCCGGTTGATGTGAATGATC

upper sequence: GLYMA09G28650.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv17s0000g08170.t01 (Vitis vinifera), 3'ss of exon 6
gtaacttaatagtgttactgttaatcagtgtttctctcctacaaggtataaaattgtttatattaatgaatgctacaattttgtaat-ctgcagCATATAACAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGCAATGCCTATTGATGCTCAGGATC
|||||     | |||    |||    |||  |  | |        |  | ||||  ||||| || || |||   | | |   ||| | ||||||| ||||| |||||| | |||||||||||||| || |||||||| ||||||   ||| ||||||   | || |
gtaacacctcaatgt----gttgtaaagtactcatatttattggtgatttaaat--tttattttgatcaatttaaaattgaggtacttctgcagCTTATAATAAAGCTCTTGAGGATGCTATTGCGGTGCTTGACAAGATTGCAGCCCCTGTTGATGTGAATGACC

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|208048655|gb|GD847558.1|GD847558
EST:     TGTCGCCGATGCATTCATTGACAAAATTCACCCTACAGTTATTTGCCGAG                         CATATAACAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGCAA
genomic: TGTCGCCGATGCATTCATTGACAAAATTCACCCTACAGTTATTTGCCGAGgtaacttaat ... taatctgcagCATATAACAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGCAA
EST: gi|208176087|gb|GD974318.1|GD974318
EST:     TGTCGCCGATGCATTCATTGACAAAATTCACCCTACAGTTATTTGCCGAG                         CATATAACAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGCAA
genomic: TGTCGCCGATGCATTCATTGACAAAATTCACCCTACAGTTATTTGCCGAGgtaacttaat ... taatctgcagCATATAACAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGCAA
EST: gi|209700495|gb|BW660895.1|BW660895
EST:     TGTCGCCGATGCATTCATTGACAAAATTCACCCTACAGTTATTTGCCGAG                         CATATAACAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGCAA
genomic: TGTCGCCGATGCATTCATTGACAAAATTCACCCTACAGTTATTTGCCGAGgtaacttaat ... taatctgcagCATATAACAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGCAA
EST: gi|213618229|gb|DB972999.1|DB972999
EST:     TGTCGCCGATGCATTCATTGACAAAATTCACCCTACAGTTATTTGCCGAG                         CATATAACANAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGCAA
genomic: TGTCGCCGATGCATTCATTGACAAAATTCACCCTACAGTTATTTGCCGAGgtaacttaat ... taatctgcagCATATAACAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGCAA
EST: gi|209725416|gb|BW658278.1|BW658278
EST:     TGTCGCCGATGCATTCATTGACAAAATTCACCCTACAGTTATTTGCCGAG                         CATATAACAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGCAA
genomic: TGTCGCCGATGCATTCATTGACAAAATTCACCCTACAGTTATTTGCCGAGgtaacttaat ... taatctgcagCATATAACAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGCAA
EST: gi|193333955|gb|FK301343.1|FK301343
EST:     TGTCGCCGATGCATTCATTGACAAAATTCACCCTACAGTTATTTGCCGAG                         CATAATAAACAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGC
genomic: TGTCGCCGATGCATTCATTGACAAAATTCACCCTACAGTTATTTGCCGAGgtaacttaat ... taatctgcagCATA-TAA-CAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGC
EST: gi|207717196|gb|GD697690.1|GD697690
EST:     CGCCGATGCATTCATTGACAAAATTCACCCTACAGTTATTTGCCGAG                         CATATAACAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGCAA
genomic: CGCCGATGCATTCATTGACAAAATTCACCCTACAGTTATTTGCCGAGgtaacttaat ... taatctgcagCATATAACAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctacaaggtataaaattgtttatattaatgaatgctacaattttgtaatctgcagCATATAACAAAGCTTTGGAGGATGCTATTGCTGTCCTTGACAAAATTGCAATGCCTATTGATGCTCAGGATC
                      tattaat  putative branch site (score: 2)
        tataaaattgtttata  TA-rich tract