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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattacctccctttggtggattatacttttaattctccttttaaagttggatatacttaaactgaagattgccgttctttttcttgctttgttatatttttatattctactttgtgcagTGGCTTCGAAGTTTTGATCAACGTTTGCGTGAGAGTATTGACTATGCAATCTGCTTGAATAGCATTGGTTCATGGGATAATGAACTATGGATTCATGTGT

Basic information

species Vitis vinifera
transcript Vv06s0080g00880.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0080g00880.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os08g01180.1 (Oryza sativa), 3'ss of exon 6
gtaattacctccctttggtggattatactttt-aattctccttttaaagttggatatacttaaactgaagattgccgttctttttcttgctttgttatatttttatattctactttgtgcagTGGCTTCGAAGTTTTGATCAACGTTTGCGTGAGAGTATTGACTATGCAATCTGCTTGAATAGCATTGGTTCATGGGATAATGAACTATGGATTCATGTGT
                 ||   |||| || || | || |  |||||||     || | |||    ||  |  | | ||| || |     | | | | ||| ||| |    |  || || ||||||||| ||||||| ||||| ||| |||||||||| |||||||||||||| |||||||| ||| ||||||| ||||| |||||||| ||||| |||||||
-----------------gttagttattctcttcagttttttttttaaaa--aaatctgctt----tgtggcat-ctgtttttatcaactcatggctgtatcttttttgaat-tttggtacagTGGCTTAGAAGTTTCGATCAGCGTGTGCGTGAGAGCATTGACTATGCAATTTGCTTGAACAGCGTTGGTTCCTGGGACAATGAACTCTGGATGCATGTGT

upper sequence: Vv06s0080g00880.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G451366_T02 (Zea mays), 3'ss of exon 6
gtaattacctccctttggtggattatacttttaattctccttttaaagttggatatacttaaactgaagattgccgttctttttcttgctttgttatatttttatattctactttgtgcagTGGCTTCGAAGTTTTGATCAACGTTTGCGTGAGAGTATTGACTATGCAATCTGCTTGAATAGCATTGGTTCATGGGATAATGAACTATGGATTCATGTGT
|||| ||||  | ||||   ||||   |   ||  ||    |||   ||   || |   ||| |   |  || | | | |||||                    || || ||    ||||||||||  || |||||||||| ||| | || ||||| |||||||||||||| |||||||| ||  ||||||| |||   ||||| || ||||| ||||| |
gtaagtacc--catttgtgcgatttagcaactaggtccttcttt---gtgtcatctgtgtaagc---aacttacagctgttttt--------------------taatcaacg--atgcagTGGCTAAGAGGTTTTGATCAGCGTGTACGCGAGAGCATTGACTATGCAATTTGCTTGAACAGTGTTGGTTCCTGGAGCAATGACCTCTGGATGCATGTAT

upper sequence: Vv06s0080g00880.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G021784_T01 (Zea mays), 3'ss of exon 6
gtaattacctccctttggtggattatacttttaattctccttttaaagttggatatacttaaactgaagattgccgttctttttcttgctttgttatatttttatattctactttgtgcagTGGCTTCGAAGTTTTGATCAACGTTTGCGTGAGAGTATTGACTATGCAATCTGCTTGAATAGCATTGGTTCATGGGATAATGAACTATGGATTCATGTGT
|||| ||||  | |||| | ||||   |   ||  ||   | | |  ||   || |   ||| |     |  || ||| |||||  ||                            ||||||||||| | ||||||||||| ||| | || ||||| |||||||| ||||| |||||||| |   ||||||| ||||  ||||| || ||||| ||||| |
gtaagtacc--catttgtttgatttagcaactaggtcctttgtgattgtgtcatctgtgtaagcaacttacagctgttttttttaatg---------------------------atgcagTGGCTTAGGAGTTTTGATCAGCGTGTACGCGAGAGCATTGACTACGCAATTTGCTTGAACAATGTTGGTTCCTGGGGCAATGACCTCTGGATGCATGTAT

upper sequence: Vv06s0080g00880.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G09710.1 (Glycine max), 3'ss of exon 6
gtaattacctccctttggtggattatacttttaattctccttttaaagttggatatacttaaactgaagattgccgttctttttcttgctttgttatatttttatattctactttgtgcagTGGCTTCGAAGTTTTGATCAACGTTTGCGTGAGAGTATTGACTATGCAATCTGCTTGAATAGCATTGGTTCATGGGATAATGAACTATGGATTCATGTGT
||||      |  |||||  | | ||     | |||  |   |  || ||  | |       | | ||  || || ||  || |  |  ||||||| ||      ||||| | || | ||||||||| | || |||||||||||| |||||||||| ||||||||||| || |||||| |||| ||||| || ||||| |||||| | |||||||||||||
gtaagatttcctgtttggaagttcat-----ttatttgctgatagaactttaacacgt----agtcaaccttcccttttgttatgct-ttttgttacataca---attctgcatttttcagTGGCTTAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATTTGCTTGGATAGTATTGGCTCTTGGGAAAATGAATTGTGGATTCATGTGT

upper sequence: Vv06s0080g00880.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G18710.1 (Glycine max), 3'ss of exon 6
gtaattacctccctttggtggattatacttttaattctccttttaaagttggatatacttaaactgaagattgccgttctttttcttgctttgttatatttttatattctactttgtgcagTGGCTTCGAAGTTTTGATCAACGTTTGCGTGAGAGTATTGACTATGCAATCTGCTTGAATAGCATTGGTTCATGGGATAATGAACTATGGATTCATGTGT
|| ||     |  |||||  | | ||   |||       ||  || |  || | |  |  || |     |    |  | || || | | |||| | ||  |  | ||||| | || | ||||||||| | || |||||||||||| |||||||||| ||||||||||| || |||||| |||| ||||| || ||||| |||||| | ||||||||||| |
gtgatatttcctgtttggaagttcatttatttg------ctgatagaactgta-acgcgcaatc----aaccttcccttttgttatggttttggt-tacataca-attctgcatttttcagTGGCTTAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATTTGCTTGGATAGTATTGGCTCTTGGGAAAATGAATTGTGGATTCATGTAT

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|161718905|gb|FC067348.1|FC067348
EST:     TTTTTGGACTAACGTCGGGTGGACCTTATAACTACAATGGAACACATAAG                         TGGCTTCGAAGTTTTGACCAACGTTTGCGTGAGAGTATTGACTATGCAATC
genomic: TTTTTGGACTAACGTCGGGTGGACCTTATAACTACAATGGAACACATAAGgtaattacct ... ctttgtgcagTGGCTTCGAAGTTTTGATCAACGTTTGCGTGAGAGTATTGACTATGCAATC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagattgccgttctttttcttgctttgttatatttttatattctactttgtgcagTGGCTTCGAAGTTTTGATCAACGTTTGCGTGAGAGTATTGACTATGCAATCTGCTTGAATAGCATTGGTTCATGGGATAATGAACTATGGATTCATGTGT
                                        ttctacttt  CT-rich tract
             tttttcttgctttgtt  TA-rich tract