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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggttactgaaaaccctttcatgcctttggtttatatgctcatttcattatttattgtcctctaccatcatcgttaatctgaataaatcaaatggaacagATGAGGTGGGGAACACTGCTGCCTTCTTGGCATCACCTCTGGCATCTGCCATCACTGGTGCTGTCATATACGTCGATAACGGTCTGAATGCAATGGGTGT

Basic information

species Vitis vinifera
transcript Vv06s0004g01310.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os09g10600.1 (Oryza sativa), 3'ss of exon 12
gtgggttactgaaaaccctttcatgcctttggtttatatgctcatttcattatttattgtcctctaccatca-tcgttaatctgaataaatcaaatggaacagATGAGGTGGGGAACACTGCTGCCTTCTTGGCATCACCTCTGGCATCTGCCATCACTGGTGCTGTCATATACGTCGATAACGGTCTGAATGCAATGGGTGT
          ||||     ||| | |  || |  | |||    ||  |  |||||||   |  | |   ||| |  | || ||  ||  || |  |  ||||||||| ||||||||||| || || ||||| ||||| ||  |||||||||| ||||||||  |    || || || || || || || ||| |||||||  |
-------gtcgaaattaacttctttcagtttgcctctattgggatgcc--tatttatg--caccaaaggtcacttataaagctttatttat-atgttcaacagATGAAGTGGGGAACACAGCAGCATTCTTAGCATCGCCGTTGGCATCTGCAATCACTGGATCAACTATCTATGTTGACAATGGGCTCAATACAATGGGACT

upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA11G10770.1 (Glycine max), 3'ss of exon 12
gtgggttactgaaaaccctttcatgcctttggtttata---tgctcatttcattatttattgtcctctaccatcatcgttaatctgaataaatcaaatggaacagATGAGGTGGGGAACACTGCTGCCTTCTTGGCATCACCTCTGGCATCTGCCATCACTGGTGCTGTCATATACGTCGATAACGGTCTGAATGCAATGGGTGT
         | | |      |||    | |   || ||   | | | || |||| |  ||       ||    ||    | |  ||||   ||    | |  |||| |||||||| ||||| ||||||||||| ||||||||| |||||||||| ||||||||| ||||  ||||||| || || ||||||||||| ||||||||
--------gtaacattttcatcagaattattacttgtaatgtacacgttccattttcaatctgtgattatttgcacaactgagttgaa---attttgtcgtgcagAGGAGGTGGGCAACACAGCTGCCTTCTTAGCATCACCTTTGGCATCTGCTATCACTGGTACTGTTCTATACGTTGACAATGGTCTGAATGCTATGGGTGT

upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA12G03060.1 (Glycine max), 3'ss of exon 13
gtgggttactgaaaaccctttcatgcctttggtttatatgctcatttcattatttattgtcctctaccatcatcgttaatctgaataaatcaaatggaacagATGAGGTGGGGAACACTGCTGCCTTCTTGGCATCACCTCTGGCATCTGCCATCACTGGTGCTGTCATATACGTCGATAACGGTCTGAATGCAATGGGTGT
  |    | |   | |    | || ||||    | || | |   || |||| |  ||       ||    || |  | |  |||    ||    |    |||| ||||||||  |||| ||||||||||| ||||||||| |||||||||| ||||||||| ||||  |||| || || || ||||||||||| ||||||||
--gtaacattttcatcagaattattccttg---taatgtacaggttccattttcaatctgtgattatttgcaccactgagttgat---attttgtcttgcagAGGAGGTGGGCTACACAGCTGCCTTCTTAGCATCACCTTTGGCATCTGCTATCACTGGTACTGTTCTATATGTTGACAATGGTCTGAATGCTATGGGTGT

upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA08G45990.1 (Glycine max), 3'ss of exon 12
gtgggttactgaaaaccctttcatgcctttggtttatatgctcatttcattatttattgtcctctaccatcatcgttaatctgaataaatcaaatggaacagATGAGGTGGGGAACACTGCTGCCTTCTTGGCATCACCTCTGGCATCTGCCATCACTGGTGCTGTCATATACGTCGATAACGGTCTGAATGCAATGGGTGT
    || | ||        || |     ||  ||| |    | |  |   |     || |  | | | |  |     | | || |    | | |    ||||| ||||| || ||||||||||| |||||| |||||||  ||||||| || ||||| |||||||| ||||| || || || ||||| || || ||||| ||
----gtaaatgtt--tttcttgagattcttcctttctgaaatgacctttctccacctttttgtttgcaactacttacactttggagttgttaca----acagAGGAGGTTGGCAACACTGCTGCTTTCTTGTCATCACCCTTGGCATCAGCTATCACAGGTGCTGTTATATATGTTGACAATGGTCTAAACGCCATGGGGGT

upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA18G31780.1 (Glycine max), 3'ss of exon 11
---gtgggttactgaaaaccctttcatgcctttggtttatatgctcatttcattatttattgtcctctaccatcatcgttaatctgaataaatcaaatggaacagATGAGGTGGGGAACACTGCTGCCTTCTTGGCATCACCTCTGGCATCTGCCATCACTGGTGCTGTCATATACGTCGATAACGGTCTGAATGCAATGGGTGT-
    ||     ||  | |  |||     |||||   | | |||  | ||     | || ||||   | || |    |  |        |  |     |  |||||| ||||| || ||||||||||| |||||| |||||||  ||||||| || || || || ||||||||||| || || || ||||| || || |||||||| 
taaatgttcctcttgagattctt-----ccttt--ctgaaatgacccttctccaactttttgtgtgcaactacttacactt-------tggagttgttacaacagaGGAGGTAGGCAACACTGCTGCTTTCTTGTCATCACCCTTGGCATCAGCTATTACAGGCGCTGTCATATATGTTGACAATGGTCTAAACGCTATGGGTGTT

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|110690465|gb|EE067586.1|EE067586
EST:     GATCGAGTATTCGCTGGCTAATGCACCTCTGCAGAAAGAACTAAGTGCAG                         ATGAGGTGGGGAACACTGCTGCCTTCTTGGCATCACCTCTGGCATCTGCCA
genomic: GATCGAGTATTCGCTGGCTAATGCACCTCTGCAGAAAGAACTAAGTGCAGgtgggttact ... aatggaacagATGAGGTGGGGAACACTGCTGCCTTCTTGGCATCACCTCTGGCATCTGCCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattatttattgtcctctaccatcatcgttaatctgaataaatcaaatggaacagATGAGGTGGGGAACACTGCTGCCTTCTTGGCATCACCTCTGGCATCTGCCATCACTGGTGCTGTCATATACGTCGATAACGGTCTGAATGCAATGGGTGT
                          cgttaat  putative branch site (score: 4)
                            ttaatctgaataaat  TA-rich tract