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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgttttatcagtaccgatgattatgaatggaatctttccttactctacttttttctgatttatacactcttctcagtataattctttgtccttcctctctggcagGAGCAACAGTTGCTTCATTTTGTTACTTGCAATTCTTTCCACCCCCTTATGACATAGATG

Basic information

species Vitis vinifera
transcript Vv01s0011g04180.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g04180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G41580.1 (Glycine max), 3'ss of exon 6
gtctgttttatcagtaccgatgattatgaatggaatctttccttactctacttttttctgatttatacactcttctcagtataattctttgtccttcctctctggcagGAGCAACAGTTGCTTCATTTTGTTACTTGCAATTCTTTCCACCCCCTTATGACATAGATG
   |  ||||    | ||       ||  ||  ||| ||||  ||    ||  |||||  | ||      |||  |  | ||| || |||            |  ||||      | ||||||| ||||||||||| |||||||||||||| |||||||||||||| |
-gttagtttactgatgccag-----attgattaaatatttcaataa---acccttttcaaagtt------tctgatacgaatattttttt------------taccagGGATGGTAATTGCTTCCTTTTGTTACTTACAATTCTTTCCACCTCCTTATGACATAGACG

upper sequence: Vv01s0011g04180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G25650.1 (Glycine max), 3'ss of exon 6
gtctgttttatcagtaccgatgattatgaatggaatctttccttactctacttttttctgatttatacactcttctcagtataattctttgtccttcctctctggcagGAGCAACAGTTGCTTCATTTTGTTACTTGCAATTCTTTCCACCCCCTTATGACATAGATG
                     | || |     ||| |     | | | ||  |||         ||| || ||| | |  |   |    |     |    | |  ||||    | | ||||||||||||||||||| |||||||||||||| || |||||| ||||||
---------------------gtttgtttcccgaagccagattgattatatatttca-------ataaacccttttgaaaagtttctgatacgaatgtcttttaccagGGATGATAATTGCTTCATTTTGTTACTTACAATTCTTTCCACCTCCATATGACGTAGATG

upper sequence: Vv01s0011g04180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G18450.2 (Glycine max), 3'ss of exon 6
gtctgttttatcagtaccgatgattatgaatggaatctttccttactctacttttttctgatttatacactcttctcagtataattctttgtccttcctctctggcagGAGCAACAGTTGCTTCATTTTGTTACTTGCAATTCTTTCCACCCCCTTATGACATAGATG
                  |    ||    |  | || |||| ||  |  | || ||  | || || | |  ||| ||   |  | | ||| | |   || |   |||||    ||| |  |||| ||||||||||| |||||||||||||| || ||||||| |||||
------------------gtctgttgaagactggat-tttctttgtttgatttattaat-atgtaaatatacttttctcca-gactttttatacgagcttttatgcagGTTTGACAATCTCTTCCTTTTGTTACTTACAATTCTTTCCACCTCCATATGACACAGATG

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|110427784|gb|EC994235.1|EC994235
EST:     AGATGACTATTGGCATCACTGGCAAGATGTATTTGCCGGAGGTGTAATAG                         GAGCAACAGTTGCTTCATTTTGTTACTTGCAATTCTTTCCACCCCCTTATG
genomic: AGATGACTATTGGCATCACTGGCAAGATGTATTTGCCGGAGGTGTAATAGgtctgtttta ... tctctggcagGAGCAACAGTTGCTTCATTTTGTTACTTGCAATTCTTTCCACCCCCTTATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttctgatttatacactcttctcagtataattctttgtccttcctctctggcagGAGCAACAGTTGCTTCATTTTGTTACTTGCAATTCTTTCCACCCCCTTATGACATAGATG
  ttctgat  putative branch site (score: 3)
                            taattctttgtccttc  putative PPT
                          tataattcttt  TA-rich tract