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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataatttaatttctggaaatagatgtacttctgttcttttaaatagttagtctttaggaagttagccttgcagtcaacgaagtgtaacattttagtcatgctctctattttcttggtccagGTTTTGGGAGTGATGCAGATAACCCACATTTGCCTCATAATCACGAGCAAAATGAAGTTGTTTATACTGGGACTCATGACAATGACACA

Basic information

species Vitis vinifera
transcript Vv07s0031g01540.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0031g01540.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA06G15140.1 (Glycine max), 3'ss of exon 11
gtaataatttaatttctggaaatagatgtacttctgttcttttaaatagtt-agtctttaggaagttagccttgcagtcaacgaagtgtaacattttagtcatgctctctatttt-cttggtccagGTTTTGGGAGTGATGCAGATAACCCACATTTGCCTCATAATCACGAGCAAAATGAAGTTGTTTATACTGGGACTCATGACAATGACACA
                |    ||  || | ||  | || |||   ||  || ||||| |||| | ||     || |||||  |    | || |||||   |||    |||||||  ||| ||||||| |||||  |||||||  ||||||| ||||||||||||||||| |||   ||| ||||||| ||||| |||||||||||||||||||||
---------------gtaatgattaat-tgctaattttgtttaccatccttcagtctctaggtaatt-----tgaagtcagagtgccggaatatttt---cata---tctatttcactttgtccagGGTTTGGAGGTGATGCTAATAACCCTCATTTGCCTCATAATCATGAGTGCAATCAAGTTGTCTATACAGGGACTCATGACAATGACACA

upper sequence: Vv07s0031g01540.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA04G39730.1 (Glycine max), 3'ss of exon 11
gtaataatttaatttctggaaatagatgtacttctgttcttttaaatagttagtctttaggaagttagcctt-gcagtcaacgaagtgtaacattttagtcatgctctctattttcttggtccagGTTTTGGGAGTGATGCAGATAACCCACATTTGCCTCATAATCACGAGCAAAATGAAGTTGTTTATACTGGGACTCATGACAATGACACA
                  | ||| |||  | | |   | || |   |    |  ||| || |   ||  ||  | |        ||||    | |    ||||    |||||||        |||| |||||  ||| |||  ||||||| |||||||| ||||||||||||   ||| ||||||| ||||| |||||||||||||||||||||
------------------gtaat-gattaattgcaaattttgt---ttaccatccttcagtatcgtactctaagtaacttgatgagtgcccgaatactttcata---tctatttcaccttgtcagGGTTTGGAGGTGGTGCTAATAACCCTCATTTGCCCCATAATCACGAGTGCAATCAAGTTGTCTATACAGGGACTCATGACAATGACACA
















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|45771099|gb|CN006951.1|CN006951
EST:     TCAGCTCAGGAAATACATCAGAGCACCTGGAATGGCTGTCCTCCAGTTTG                         GTTTTGGGAGTGATGCAGATAACCCACATTTGCCTCATAATCACGAGCAAA
genomic: TCAGCTCAGGAAATACATCAGAGCACCTGGAATGGCTGTCCTCCAGTTTGgtaataattt ... cttggtccagGTTTTGGGAGTGATGCAGATAACCCACATTTGCCTCATAATCACGAGCAAA
EST: gi|34544532|gb|CF512764.1|CF512764
EST:     TCAGCTCAGGAAATACATCAGAGCACCTGGAATGGCTGTCCTCCAGTTTG                         GTTTTGGGAGTGATGCAGATAACCCACATTTGCCTCATAATCACGAGCAAA
genomic: TCAGCTCAGGAAATACATCAGAGCACCTGGAATGGCTGTCCTCCAGTTTGgtaataattt ... cttggtccagGTTTTGGGAGTGATGCAGATAACCCACATTTGCCTCATAATCACGAGCAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgcagtcaacgaagtgtaacattttagtcatgctctctattttcttggtccagGTTTTGGGAGTGATGCAGATAACCCACATTTGCCTCATAATCACGAGCAAAATGAAGTTGTTTATACTGGGACTCATGACAATGACACA
               gtgtaac  putative branch site (score: 3)
                                tgctctctattttctt  putative PPT
                  taacatttta  TA-rich tract