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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagccttctttttttacatagacattatattatgttgaatatttttttgataggcataatatgttcaatatttgagtatgccgatgtattttatttagatttcttgtgttttgttgggttgatttttgcaaagaaaaaggctttatcatattgttataatctataggttttgttgtttatgtatgcagGCAAACTGGCAATATGTACAAGAACGTTAAGAAGAAGATTGAGAGGGGTGTTGCCTTTCCAACTTGCATTTCTGTTAACAACACTGTCTGTCATTTTTCT

Basic information

species Vitis vinifera
transcript Vv08s0217g00020.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0217g00020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G29420.1 (Glycine max), 3'ss of exon 3
gtgagccttctttttttacatagacattatattatgttgaatatttttttgataggcataatatgttcaatatttgagtatgccgatgtattttatttagatttcttgt-gttttgttgggttgatttttgcaaagaaaaaggctttatcatattgttataatctataggttttgttgtttatgtatgcagGCAAACTGGCAATATGTACAAGAACGTTAAGAAGAAGATTGAGAGGGGTGTTGCCTTTCCAACTTGCATTTCTGTTAACAACACTGTCTGTCATTTTTCT
                                                             || | |   |  || | | ||||          ||||  |||| ||   | | | |  | ||| | |||    |      |  |||| | ||| |   |      |  ||||| || | ||   ||| ||||||||||| || ||||||||||| || |||| |||||||||||| ||||||||||| || || ||  | ||||| ||||||||||||||||| || |||
------------------------------------------------------------gtaagctttgtgcttaattttgcc--------ccatttgtatttgttacaggtgtttatgattgttcttttattattttgtgattttagcttatggggtttgc---tgtgtttttttttcta---atgaagGCAAACTGGTAACATGTACAAGAATGTGAAGAGGAAGATTGAGAGAGGTGTTGCCTTCCCGACATGTGTGTCTGTGAACAACACTGTCTGTCACTTCTCT

upper sequence: Vv08s0217g00020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G07420.1 (Glycine max), 3'ss of exon 3
gtgagccttctttttttacatagacattatattatgttgaatatttttttgataggcataatatgttcaatatttgagtatgccgatgtattttatttagatttcttgtgttttgttgggt-tgatttttgcaaagaaaaaggctttatcat--attgttataatctataggttt--tgttgtttatgtatgcagGCAAACTGGCAATATGTACAAGAACGTTAAGAAGAAGATTGAGAGGGGTGTTGCCTTTCCAACTTGCATTTCTGTTAACAACACTGTCTGTCATTTTTCT
                                                                                     | || || |  |||  |||      |||   || || ||||||||              ||||| ||   | ||| ||   ||| ||| |  |||  | | |  ||| ||||||||||| |  ||||||||||| || |||| |||||| ||||| ||||||||||| || || ||  | ||||| ||||||||||||||||| || |||
-----------------------------------------------------------------------------------gtaagttttgtgcttaagttttccccatttgtatgtgtatgatttttct------------tttattatttgtggttttagcttatgggtgtgctgtgttgttttaatgaagGCAAACTGGTAGCATGTACAAGAATGTGAAGAGGAAGATAGAGAGAGGTGTTGCCTTCCCTACATGTGTGTCTGTGAACAACACTGTCTGTCACTTCTCT

upper sequence: Vv08s0217g00020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G43390.1 (Glycine max), 3'ss of exon 3
gtgagccttctttttttacatagacattatattatgttgaatatttttttgataggcataatatgttcaatatttgagtatgccgatgtattttatttagatttct-tgtgttttgttgggttgatttttgcaaagaaaaaggctttatcatattgttataatctataggttttgttgtttatgtatgcagGCAAACTGGCAATATGTACAAGAACGTTAAGAAGAAGATTGAGAGGGGTGTTGCCTTTCCAACTTGCATTTCTGTTAACAACACTGTCTGTCATTTTTCT
                                                    || || ||  || ||||  | |  || |   |  ||| | || || | || | | |   ||   |||   || ||| ||             ||| | |||||  |   ||       ||  |||   | ||| || ||||||||||| ||| |||||||||| || |||| |||||||||||| |||||||| || ||||| ||  | ||  | ||||||  |||||| ||||| || 
--------------------------------------------------agtaagcttataatattcataaatgaaggag--cattgtctgttcttaacatatatgtacattcaattg--ctggtttgtgtct---------ttttttaatatttatg-gattagctaattgggtttggtttgtgtgtaGGCAAACTGGAAATGTGTACAAGAATGTGAAGAGGAAGATTGAGAGAGGTGTTGCTTTCCCAACATGTTTATCAATCAACAACGTTGTCTGCCATTTCTC-

upper sequence: Vv08s0217g00020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G18500.1 (Glycine max), 3'ss of exon 3
gtgagccttctttttttacatagacattatattatgttgaatatttttttgataggcataatatgttcaatatttgagtatgccgatgtattttatttagatttcttgtgttttgttgggttgatttttgcaaagaaaaaggctttatcatattgttataatctataggttttgttgtttatgtatgcagGCAAACTGGCAATATGTACAAGAACGTTAAGAAGAAGATTGAGAGGGGTGTTGCCTTTCCAACTTGCATTTCTGTTAACAACACTGTCTGTCATTTTTCT
                                                    || || ||  || ||||  | |  || |   |  ||| ||| |  |   ||| ||    | |||    || |||  |||   |        || ||  |  | || ||   |||||| |||| | | |  || || ||||||||||| ||| |||||||||| || |||| |||||||||||| |||||||| || || || ||  | ||||| ||||||  |||||| ||||| |||
---------------------------------------------------gtaagcttataatattcataaatgaaggag--cattgtctttgacat---ttttttaacatgtgtatatttaattgctgctttgtgttttttttaatatttatattttagcttatagggtttgctttgtgggtgtgtagGCAAACTGGAAATGTGTACAAGAATGTGAAGAGGAAGATTGAGAGAGGTGTTGCTTTCCCTACATGTTTGTCTGTAAACAACGTTGTCTGCCATTTCTCT

upper sequence: Vv08s0217g00020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S119_137V6.1 (Physcomitrella patens), 3'ss of exon 2
gtgagccttctttttttacatagacattatattatgttgaatatttttttgataggcataatatgttcaatatttgagtatgccgatgtattttatttagatttcttgtgttttgttgggttgatttttgcaaagaaaaaggctttatcatattgttataatctataggttttgttgtttatgtatgcagGCAAACTGGCAATATGTACAAGAACGTTAAGAAGAAGATTGAGAGGGGTGTTGCCTTTCCAACTTGCATTTCTGTTAACAACACTGTCTGTCATTTTTCT
                                                                      |||| |  |||    ||  | |  ||| | |  | |||| |  ||| |  |  ||||  |    ||||     ||  |  |  || ||      |  |  |||        |    |||| | ||| |    ||||||||||||| |||| ||||| ||||| || || ||||| ||||| |||||| | ||||| ||||||||||| ||||| || |||
---------------------------------------------------------------------gtattagt-tatattcatcaactcaattgataggtgttgt-tgctgtcgtctgaatttacgtgttgaaa-----ttcttactgctgcta------acggaattt--------tactcgcagTCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGTTGCATTTCCCACTTGCGTATCTGTGAACAACACTGTATGTCACTTCTCT

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|71875961|gb|DT025016.1|DT025016
EST:     AAGGCAAAGATTGTTGACATCTGCGAGAAAGGCGATTCATTCATTAGAGA                         GCAAACTGGCAATATGTACAAGAACGTTAAGAAGAAGATCGAGAGGGGTGT
genomic: AAGGCAAAGATTGTTGACATCTGCGAGAAAGGCGATTCATTCATTAGAGAgtgagccttc ... atgtatgcagGCAAACTGGCAATATGTACAAGAACGTTAAGAAGAAGATTGAGAGGGGTGT
EST: gi|22007317|gb|BQ792351.1|BQ792351
EST:     AAGGCAATGA-TGTTGAC-TCTGCGAGAAAGGCGA-TCATTCATTAGAGA                         GCAAGCTGTCAATATGTACAAGAACG-TAAGAAGAAGATCGAGAGGGGTG-
genomic: AAGGCAAAGATTGTTGACATCTGCGAGAAAGGCGATTCATTCATTAGAGAgtgagccttc ... atgtatgcagGCAAACTGGCAATATGTACAAGAACGTTAAGAAGAAGATTGAGAGGGGTGT
EST: gi|329112381|gb|JG391849.1|JG391849
EST:     GGCAAAGATTGTTGACATCTGCGAGAAAGGCGATTCATTCATTAGAGA                         GCAAACTGGCAATATGTACAAGAACG
genomic: GGCAAAGATTGTTGACATCTGCGAGAAAGGCGATTCATTCATTAGAGAgtgagccttc ... atgtatgcagGCAAACTGGCAATATGTACAAGAACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaaggctttatcatattgttataatctataggttttgttgtttatgtatgcagGCAAACTGGCAATATGTACAAGAACGTTAAGAAGAAGATTGAGAGGGGTGTTGCCTTTCCAACTTGCATTTCTGTTAACAACACTGTCTGTCATTTTTCT
        tttatcatattgttat  TA-rich tract