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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtagtaaaaacatttagttcaaataattgcagtaaatgtaaagtttttagctgtcctactgacttagattcttctgcacttgcagTCGGGTTCCAGAGGAATATGTTCCTCAGCATCCAACAAATGGAAATCCTCCGACTCTGTTTTTAGCATTAAATG

Basic information

species Glycine max
transcript GLYMA05G27890.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G27890.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 11
gtgtagtaa-aaacatttagttcaaataattgcagtaaatgtaaagtttttagctgtcctactgacttagattcttctgcacttgcagTCGGGTTCCAGAGGAATATGTTCCTCAGCATCCAACAAATGGAAATCCTCCGACTCTGTTTTTAGCATTAAATG
  || |||  || ||| | |||  | || ||    |||||  | || |||    | |   | | | | |  || || ||   |||||||  ||| |||||||||| ||||| |||||||||||| ||||||||||| || ||| | ||||| |  ||| |||
--gtggtaccaagcatcttgttatagtatttatgataaatacagaggtttgcattctgtgagtaaat-atcttattgtgtgtttgcagTAAGGTCCCAGAGGAATTTGTTCTTCAGCATCCAACTAATGGAAATCCCCCAACTTTATTTTTGGTTTTACATG
















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|298189071|gb|HO037474.1|HO037474
EST:     GCTGATGGATGGATACCACGTGAACAAATTCTCGGGGCTGAAGCACTCAG                         TCGGGTTCCAGAGGAATATGTTCCTCAGCATCCAACAAATGGAAATCCTCC
genomic: GCTGATGGATGGATACCACGTGAACAAATTCTCGGGGCTGAAGCACTCAGgtgtagtaaa ... gcacttgcagTCGGGTTCCAGAGGAATATGTTCCTCAGCATCCAACAAATGGAAATCCTCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtaaatgtaaagtttttagctgtcctactgacttagattcttctgcacttgcagTCGGGTTCCAGAGGAATATGTTCCTCAGCATCCAACAAATGGAAATCCTCCGACTCTGTTTTTAGCATTAAATG
                          tactgac  putative branch site (score: 1)
                                      ttcttctgc  putative PPT
     atgtaaagttttta  TA-rich tract