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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcacggcttttttcgtacccagatcatctcccgtgttctagtagttagcaataactcattttcagggcatgatttttgcttgcagAGGGAAGAATATATCACCCTACGTGACTTGAAGGGATGCAAACTTTCTGGAAATGTTTTCAATATTCTTTTCAATCTTAATAAGTTCATGGCTTTTGAAA

Basic information

species Vitis vinifera
transcript Vv07s0005g03730.t01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g03730.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G148323_T01 (Zea mays), 3'ss of exon 10
gtcacggcttttttcgtacccagatcatctcccgtgttctagtagttagcaataactcattttcagggcatgatttttgcttgcagAGGGAAGAATATATCACCCTACGTGACTTGAAGGGATGCAAACTTTCTGGAAATGTTTTCAATATTCTTTTCAATCTTAATAAGTTCATGGCTTTTGAAA
                     ||||  ||   | | ||  |  |    |   || ||    || |        ||  |   | ||||  ||    ||| | || ||||| ||||| ||  | || ||||| || |||||  | |||||||||||||||||||| || ||||||||||| |||||||
-------------------gtagattctcatacatattacataaac--gttttatctgggcttgataaatattttcctttctacagAATGAGAGCTATTTAACTCTACGGGACTTAAAACGGTGTAAACTCTCAGGAAACATATTCAATATTCTTTTCAATCTCAACAAGTTCATGGCATTTGAAA

upper sequence: Vv07s0005g03730.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT1G03960.2 (Arabidopsis thaliana), 3'ss of exon 10
---------------------gtcacggcttttt--tcgtacccagatcatctcccgtgttctagtagttagcaataactcattttcagggcatgatttttgcttgcagAGGGAAGAATATATCACCCTACGTGACTTGAAGGGATGCAAACTTTCTGGAAATGTTTTCAATATTCTTTTCAATCTTAATAAGTTCATGGCTTTTGAAA
                       || || | |||  |  | || || |  | |    | |   | |  || |     | |||| |  | ||   ||| |   |||||||| |||  | | ||||||||| |  ||  |||| ||||  |||||||| | ||| ||||||||||| || ||||| ||||||||||||||||| |||||||
gttagttactttacaaaccagaacatggttgtttgatttttccgagcttttttgttatttatcatttatttgactggaatcatctatatggtg-gatgtc--cttgcagAAGGAGAACTGTATCACCCTCCAGGATCTGAAAGGATCGAAACTTTCAGCAAACGTTTTCAATATACTCTTCAACCTTAATAAGTTCATGGCATTTGAAA

upper sequence: Vv07s0005g03730.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT5G44090.1 (Arabidopsis thaliana), 3'ss of exon 10
gtcacggcttttttcgtacc--cagatcatctcccg-tgttctag--tagttag--caataactcattttcagggcatgatttt---------tgcttgcagAGGGAAGAATATATCACCCTACGTGACTTGAAGGGATGCAAACTTTCTGGAAATGTTTTCAATATTCTTTTCAATCTTAATAAGTTCATGGCTTTTGAAA
  ||    || |||   |||   | ||  |||   | | |||  |  | ||  |  |  |  ||| | |||    ||| | |||           ||| |||| |||  | |  ||||| || |  ||  |||| | || |||||||||||||||| |||||||||| || || || || || || |||||||| |||||||
-gcaaaatttcttttaaaccataacatggtcttttgatattcctggcttgtctgttcctttgctcttattcgcatcatcaatttgtcgaatgactctttcagAAGGAGAACTGCATCACACTCCAGGATCTGAAAGCATCCAAACTTTCTGGAAATATTTTCAATATACTCTTTAACCTGAACAAATTCATGGCGTTTGAAA

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|161708749|gb|FC060060.1|FC060060
EST:     TACTATTTGAGGATATCTTATGTCAGATAGTTGACATGATTGCACCAGAG                         AGGGAAGAATATATCACCCTACGTGACTTGAAGGGATGCAAACTTTCTGGA
genomic: TACTATTTGAGGATATCTTATGTCAGATAGTTGACATGATTGCACCAGAGgtcacggctt ... ttgcttgcagAGGGAAGAATATATCACCCTACGTGACTTGAAGGGATGCAAACTTTCTGGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccgtgttctagtagttagcaataactcattttcagggcatgatttttgcttgcagAGGGAAGAATATATCACCCTACGTGACTTGAAGGGATGCAAACTTTCTGGAAATGTTTTCAATATTCTTTTCAATCTTAATAAGTTCATGGCTTTTGAAA
                  caataac  putative branch site (score: 2)
                                          tttttgctt  putative PPT
                                      atgattttt  TA-rich tract