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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgcagcttaattcaggtttttctttgaaaaattgccccttccacatattccacctattgatatttttaatttttaacttttgcagTTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCTGATATGGGCCTGGGCATTCCATTTAATATTGCATCTTATGCCCTTTTGA

Basic information

species Glycine max
transcript GLYMA06G01280.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G01280.3 (Glycine max), 3'ss of exon 8
lower sequence: AT2G16370.1 (Arabidopsis thaliana), 3'ss of exon 8
gtctgcagcttaattcaggtttttctttgaaaaattgccccttccacatattccacctattgatatttttaatttttaacttttgcagTTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCTGATATGGGCCTGGGCATTCCATTTAATATTGCATCTTATGCCCTTTTGA
          |||| |   ||| ||||  ||   |      |  |  | | |     |  | |  |||||  |||||   |||||||||||||||| ||| | |||||  | |||||||||||||||||||| || || ||||||||||| ||  | || ||||| ||||| |||||  | ||| | |
---------gtaatgccactttatcttctaattctgttgtttctcctacaatgagtttgattactttttt--ttttt---ttttgcagTTTTATGTGGCAGAAGGGGAACTCTCATGTCAAATGTATCAGCGTTCAGCAGATATGGGCCTTGGTGTGCCGTTTAACATTGCTTCTTACTCTCTTCTTA

upper sequence: GLYMA06G01280.3 (Glycine max), 3'ss of exon 8
lower sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 9
gtctgcagcttaattcaggtttttctttgaaaaattgccccttccacatattccacctattgatatttttaatttttaacttttgcagTTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCTGATATGGGCCTGGGCATTCCATTTAATATTGCATCTTATGCCCTTTTGA
         ||| |       |  |||    | ||| ||  |  ||  |||  |    ||| | ||||||  |||||   | |||||||| ||||||   || |||||||||||||| |||||||| |||||||||||||| ||||| || ||  | || ||||| |||||||||||||| || || |
--------gttagtattaaagtggcttatttatatttcctttatcatttatgtctttgatt-acatttttcctttttc-ttcttgcagTTCTATGTAAGCCATGGGGAGTTATCATGCCAAATGTACCAGCGATCTGCTGACATGGGTCTTGGTGTGCCGTTTAACATTGCATCTTATGCGCTCTTAA

upper sequence: GLYMA06G01280.3 (Glycine max), 3'ss of exon 8
lower sequence: Vv18s0001g12940.t01 (Vitis vinifera), 3'ss of exon 7
gtctgcagcttaattcaggtttttctttgaaaaattgccccttccac------atattccacctattgatatttttaatttttaacttttgcagTTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCTGATATGGGCCTGGGCATTCCATTTAATATTGCATCTTATGCCCTTTTGA
|| || | | |   | |   | ||  |       || | | ||  ||      | | | ||    ||  |||||     |||  || || |||||||||||||||  | |||||| |||| ||||||||||||||||| |||||||||||||| || ||  | |||||||| ||||| ||||||||  | ||||
gtttggaacatg-ctaattctctttatcatttttttcctcattttacggtagtaaaatgcaatgtttcttatttgcgtatttctacatt-gcagTTTTATGTAGCCAATGGGGAGCTATCCTGTCAAATGTATCAGCGCTCTGCTGATATGGGTCTTGGTGTGCCATTTAACATTGCTTCTTATGCTTTATTGA

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|193530211|gb|FK486200.1|FK486200
EST:     CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAG                         TTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
genomic: CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagct ... acttttgcagTTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
EST: gi|193712037|gb|FK647912.1|FK647912
EST:     CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAG                         TTTTATGTAGCACACGGGGAGTTATCATGT
genomic: CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagct ... acttttgcagTTTTATGTAGCACACGGGGAGTTATCATGT
EST: gi|193425772|gb|FK385705.1|FK385705
EST:     CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAG                         TTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
genomic: CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagct ... acttttgcagTTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
EST: gi|192311470|gb|FK005201.1|FK005201
EST:     CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAG                         TTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
genomic: CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagct ... acttttgcagTTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
EST: gi|192311469|gb|FK005200.1|FK005200
EST:     CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAG                         TTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
genomic: CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagct ... acttttgcagTTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
EST: gi|207821670|gb|GD793927.1|GD793927
EST:     CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAG                         TTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
genomic: CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagct ... acttttgcagTTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
EST: gi|193678634|gb|FK615398.1|FK615398
EST:     CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAG                         TTTTATGTAGCACACGGGGAGTTATCATGT
genomic: CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagct ... acttttgcagTTTTATGTAGCACACGGGGAGTTATCATGT
EST: gi|193646218|gb|FK589975.1|FK589975
EST:     CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAG                         TTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
genomic: CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagct ... acttttgcagTTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
EST: gi|208075014|gb|GD875511.1|GD875511
EST:     CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAG                         TTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTAT
genomic: CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagct ... acttttgcagTTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgccccttccacatattccacctattgatatttttaatttttaacttttgcagTTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCTGATATGGGCCTGGGCATTCCATTTAATATTGCATCTTATGCCCTTTTGA
                                        ttttaac  putative branch site (score: 2)
                                              cttttgc  CT-rich tract
                     acctattgatattttt  TA-rich tract