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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgctttttctgtgaaattatttgacaaggtcatctctgttaactaaatacttaaatagtcttctatctttacacatcttcctgtctccagGTTGTGGAGGTTGTGAGTGGAGACTGCATCATTGTTGCTGATGATGCTGTCCCATATGGCAGTCCATTGGCAGAACGACGAGTCAATCTCTCAAGTATCA

Basic information

species Vitis vinifera
transcript Vv14s0068g00720.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0068g00720.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g32350.2 (Oryza sativa), 3'ss of exon 8
gtaagtgctttttctgtgaaattatttgacaaggtcatctctgttaactaaatacttaaatagtcttctatctttacacatcttcctgtctccagGTTGTGGAGGTTGTGAGTGGAGACTGCATCATTGTTGCTGATGATGCTGTCCCATATGGCAGTCCATTGGCAGAACGACGAGTCAATCTCTCAAGTATCA
    |||  ||  ||||    |      |  ||   ||      | |  |     || ||     ||   | | |    ||| |    |    ||||||| |||||||||||||| || |||||||||||||||||||| || |  || || || ||||| |  |||||||| || || ||||| ||||| || |
----gtgggttccctgt----tctcacaagtagtgtattcaacatgatcatgcgattgaagctaatttgctttgtgttgatcctttcat----agGTTGTAGAGGTTGTGAGTGGGGATTGCATCATTGTTGCTGATGACGCAGCTCCTTACGGAAGTCCTTCTGCAGAACGCCGGGTTAATCTTTCAAGCATTA

upper sequence: Vv14s0068g00720.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G136296_T03 (Zea mays), 3'ss of exon 9
gtaagtgctttttctgtgaaattatttgacaaggtcatctctgttaactaaatacttaaatagt--cttctatctttacacatcttcctgtctccagGTTGTGGAGGTTGTGAGTGGAGACTGCATCATTGTTGCTGATGATGCTGTCCCATATGGCAGTCCATTGGCAGAACGACGAGTCAATCTCTCAAGTATCA
||  || |||    | |   || |          |||||  |||| ||  |||  |   |||||  ||  | | ||| ||  |    || |   ||||| || |||||||| ||||| || ||||| ||||| ||||||||| |||  |||||||||||||| |  || ||||| || || ||||| ||||| || |
gtgtgt-cttacattctccgatgacagtgtgtattcatca-tgttcacataattgtatgatagtaactattttttttccatgttgatctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCTCCATATGGCAGTCCTTCAGCCGAACGTCGGGTTAATCTGTCAAGCATTA

upper sequence: Vv14s0068g00720.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G00910.1 (Glycine max), 3'ss of exon 9
----------------------------------------------------------------------------------------------------gtaagtgctttttctgt-gaaattatttgacaaggtcatctctgttaactaaatacttaaatagtct--tctatctttacacatcttcctgtctccagGTTGTGGAGGTTGTGAGTGGAGACTGCATCATTGTTGCTGATGATGCTGTCCCATATGGCAGTCCATTGGCAGAACGACGAGTCAATCTCTCAAGTATCA
                                                                                                    ||  |  |    | | | | | || ||  |  || | ||| |   ||  | |||  | |   | |    ||||| |||    |  |  || | ||||||| || |||||||| |||||||| ||||||||||||||||||||| |  | ||||||||||||||| | ||||| || |||||||| || |||||||| |
gtaaaattttctctaaccattggtttatcccaaattaaaaaggatctcatggtgaataatatccctgaggatttggtttttgaccaaagccaatgacgttgtgtgatccacatatattgtagttgttgtattagtttatcccaaata-ttcaatcttcattcatttaagtctattttt-tggacttatctttttccagGTGGTTGAGGTTGTTAGTGGAGATTGCATCATTGTTGCTGATGATTCGATTCCATATGGCAGTCCACTAGCAGAGCGGCGAGTCAACCTTTCAAGTATTA

upper sequence: Vv14s0068g00720.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 9
-----gtaagtgctttttctgtgaaattatttgacaaggtcatctctgttaactaaatacttaaatagtcttc-tatctttacacatcttcctgtctccagGTTGTGGAGGTTGTGAGTGGAGACTGCATCATTGTTGCTGATGATGCTGTCCCATATGGCAGTCCATTGGCAGAACGACGAGTCAATCTCTCAAGTATCA
       |  |   || |    |   || ||  |  || | ||| |   |   | |||  | |   | | |   | | |||    |  |  || | ||||||| || |||||||| |||||||| |||||||||||||||||||||    | || |||||||||||| | ||||| || |||||||| || |||||||| |
gtggtccacatatattgtagacgttgttgttgtattagtttatcccaaatg-ttcaatcttcattcattttaagtctttttttggacttatctttttccagGTGGTTGAGGTTGTTAGTGGAGATTGCATCATTGTTGCTGATGATTTGATTCCGTATGGCAGTCCACTAGCAGAGCGGCGAGTCAACCTTTCAAGTATTA

upper sequence: Vv14s0068g00720.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G38010.1 (Glycine max), 3'ss of exon 9
gtaagtgctttttctgtgaaattatttgacaaggtcatctctgttaactaaatacttaaatagtcttctatctttacacatcttcctgtctccagGTTGTGGAGGTTGTGAGTGGAGACTGCATCATTGTTGCTGATGATGCTGTCCCATATGGCAGTCCATTGGCAGAACGACGAGTCAATCTCTCAAGTATCA
|||| |  |  |       ||||||||    | | ||  |    | | |    | | | |||  | | || | ||  |   |||    | | ||||| || |||||||||||||||||||| ||  |||||||||||||| |  | |||||||| |||||  | || ||  | ||||| || || |||||||| |
gtaaataatgctc------aattatttatttatgccaaat--agtcagtcttcattcatataagcatataacattttaa--cttgagttttacagGTGGTTGAGGTTGTGAGTGGAGACTGTATTGTTGTTGCTGATGATTCCATTCCATATGGTAGTCCTCTAGCTGAGAGGCGAGTTAACCTTTCAAGTATTA

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|34547333|gb|CF515565.1|CF515565
EST:     CCCCAGCTACAAATTCAAAGGCAATCCATGACCAGAATTTTACAGGAAAA                         GTTGTGGAGGTTGTGAGTGGAGACTGCATCATTGTTGCTGATGATGCTGTC
genomic: CCCCAGCTACAAATTCAAAGGCAATCCATGACCAGAATTTTACAGGAAAAgtaagtgctt ... ctgtctccagGTTGTGGAGGTTGTGAGTGGAGACTGCATCATTGTTGCTGATGATGCTGTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgttaactaaatacttaaatagtcttctatctttacacatcttcctgtctccagGTTGTGGAGGTTGTGAGTGGAGACTGCATCATTGTTGCTGATGATGCTGTCCCATATGGCAGTCCATTGGCAGAACGACGAGTCAATCTCTCAAGTATCA
     aactaaa  putative branch site (score: 2)
                                      catcttcctgtctcc  putative PPT
     aactaaatacttaaat  TA-rich tract