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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtaatatctccatcacctgcactaatattcccttttttgatattttttcttttaaatgttgctgaaaagtctccatatttcagAGTAAGAGTCATTTACACGAGGGACAACATGTCACACTTGTTCAAAGTGGAGCACAACCAATCTGGCGTGAGGAATCCACTCACCACATACAAGTTCGCA

Basic information

species Glycine max
transcript GLYMA01G40860.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G40860.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G033526_T01 (Zea mays), 3'ss of exon 11
------------------------------------------------------gttagtaatatctccatcacctgcactaatattcccttttttgatattttttcttttaaatgttgctgaaaagtctccatatttcagAGTAAGAGT--CATTTACACGAGGGACAACATGTCACACTTGTTCAAAGTGGAGCACAACCAATCTGGCGTGAGGAATCCACTCACCACATACAAGTTCGCA
                                                      | ||   | |||||  |    | |   ||||||      |||  | | || | |||||    ||  |      |    || ||  | || |||      || |  |  ||||| |  | ||||| |||||||| || ||||      |||||||| | |||||||||||||||||||| |||||  | |
gtaagaccatgtgctgtgaagttccattactgaccttttgcagtcagttcatcagataaacacatctctgtt--ttacttgaatattttgcccttttgt-tattatattttactgattattcgtggattggaatgttgaacagAAAGCACAATATGTGAAGAAGGGAGACTACGTCACTCTTGTTCAGAGCGGAGTGACTTCAATCTGGAGAGAGGAATCCACTCACCACATCCAAGTGAGGA

upper sequence: GLYMA01G40860.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv02s0012g01170.t01 (Vitis vinifera), 3'ss of exon 11
gttagtaatatctccatcacctgcactaatattccctttt--ttgatattttttctt-ttaaatgttgctgaaaagtctccatatttcagAGTAAGAGTCATTTACACGAGGGACAACATGTCACACTTGTTCAAAGTGGAGCACAACCAATCTGGCGTGAGGAATCCACTCACCACATACAAGTTCGCA
||||||  | |    ||    | || |    ||    |    |   || ||  | || |||| |||  ||  ||| | | ||| | | |||  ||| | |   |  | |||||| | ||||| || ||||||||||||||||||||||||||||||||||  ||||| ||||||||||| |||||||| |
gttagtgtttttcttatttttttcattctctttatgctcagatcattacttcatgttgttaagtgt--ctccaaatttttcatgtgt-agAACAAGGGCCTAATGAAGGAGGGAGAGCATGTGACTCTTGTTCAAAGTGGAGCACAACCAATCTGGCGTGTTGAATCTACTCACCACATCCAAGTTCGTA
















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|254337336|gb|GR845119.1|GR845119
EST:     TTTCAAATGATGTAGAAGAGACCTTCTCTAGAGCCCTCAAGCTACTATTG                         AGTAAGAGTCATTTACACGAGGGACAACATGTCACACTTGTTCAAAGTGGA
genomic: TTTCAAATGATGTAGAAGAGACCTTCTCTAGAGCCCTCAAGCTACTATTGgttagtaata ... catatttcagAGTAAGAGTCATTTACACGAGGGACAACATGTCACACTTGTTCAAAGTGGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcccttttttgatattttttcttttaaatgttgctgaaaagtctccatatttcagAGTAAGAGTCATTTACACGAGGGACAACATGTCACACTTGTTCAAAGTGGAGCACAACCAATCTGGCGTGAGGAATCCACTCACCACATACAAGTTCGCA
      ttttgat  putative branch site (score: 4)
                                         tctccat  putative PPT
     tttttgatattttttc  TA-rich tract