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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttcaaactaaagatttttttaaattttactttattatgtatagctgttacctgttgtattcaagataaactttttcttttttaattggaaaaattaaataatctatactgtgaccctcagGTTTCGGATTTCTTTACAAAGTTAATACAAAGAGTTTCTCCAAAGAGTTACCAGCAGGCTTTTGGGGAAGTTTATGTGACACAAAAGTTTCTAGAGAATT

Basic information

species Glycine max
transcript GLYMA05G01300.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G01300.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv17s0000g05800.t01 (Vitis vinifera), 3'ss of exon 5
---gtatttcaaactaaagatttttttaaattttactttattatgtatagctgttacctgttgtattcaagataaactttttcttttttaattggaaaaattaaataatctatactgtgaccctcagGTTTCGGATTTCTTTACAAAGTTAATACAAAGAGTTTCTCCAAAGAGTTACCAGCAGGCTTTTGGGGAAGTTTATGTGACACAAAAGTTTCTAGAGAATT
   | ||||  ||  || ||| ||    | ||| | || |   |  |    |||| | |||    |     ||||      || ||| ||  || || ||||   || | | ||   ||||  ||||||||| |||||||| || | |||||||||||||||| ||||||||||||| || |||||| |||| ||||||||||| |||||||| ||||| |||||||
gtagcattttcaaagaaggatgtt----agtttgaattaagagttaagcaatgttgcttgtca-gtctgtcataa------tcatttatatctgcaataatttg-tattttgta---tgactttcagGTTTCCGATTTCTTCACTAGGTTAATACAAAGAGTTGCTCCAAAGAGTTATCAACAGGCTCTTGGTGAAGTTTATGTTACACAAAAATTTCTGGAGAATT
















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|192329935|gb|FK021521.1|FK021521
EST:     TGTATGGAGATATATCTACTAAGGCAGCTCATATGCTATCACTTCCTAAG                         GTTTCGGATTTCTTTACAAAGTTAATACAAAGAGTTTCTCCAAAGAGTTAC
genomic: TGTATGGAGATATATCTACTAAGGCAGCTCATATGCTATCACTTCCTAAGgtatttcaaa ... tgaccctcagGTTTCGGATTTCTTTACAAAGTTAATACAAAGAGTTTCTCCAAAGAGTTAC
EST: gi|14259715|gb|BG882623.1|BG882623
EST:     TGTATGGAGATATATCTACTAAGGCAGCTCATATGCTATCACTTCCTAAG                         GTTTCGGATTTCTTTACAAAGTTAATACAAAGAGTTTCTCCAAAGAGTTAC
genomic: TGTATGGAGATATATCTACTAAGGCAGCTCATATGCTATCACTTCCTAAGgtatttcaaa ... tgaccctcagGTTTCGGATTTCTTTACAAAGTTAATACAAAGAGTTTCTCCAAAGAGTTAC
EST: gi|19053090|gb|BM731757.1|BM731757
EST:     TGTATGGAGATATATCTACTAAGGCAGCTCATATGCTATCACTTCCTAAG                         GTTTCGGATTTCTTTACAAAGTTAATACAAAGAGTTTCTCCAAAGAGTTAC
genomic: TGTATGGAGATATATCTACTAAGGCAGCTCATATGCTATCACTTCCTAAGgtatttcaaa ... tgaccctcagGTTTCGGATTTCTTTACAAAGTTAATACAAAGAGTTTCTCCAAAGAGTTAC
EST: gi|22931742|gb|BU548881.1|BU548881
EST:     TGTATGGAGATATATCTACTAAGGCAGCTCATATGCTATCACTTCCTAAG                         GTTTCGGATTTCTTTACAAAGTTAATACAAAGAGTTTCTCCAAAGAGTTAC
genomic: TGTATGGAGATATATCTACTAAGGCAGCTCATATGCTATCACTTCCTAAGgtatttcaaa ... tgaccctcagGTTTCGGATTTCTTTACAAAGTTAATACAAAGAGTTTCTCCAAAGAGTTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaactttttcttttttaattggaaaaattaaataatctatactgtgaccctcagGTTTCGGATTTCTTTACAAAGTTAATACAAAGAGTTTCTCCAAAGAGTTACCAGCAGGCTTTTGGGGAAGTTTATGTGACACAAAAGTTTCTAGAGAATT
             ttttaat  putative branch site (score: 3)
                                                ccctc  putative PPT
     tttttcttttttaatt  TA-rich tract