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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctgcatgatgaaattgaatgtactgtcagctcatgctggttttgatattctgtccctatagtctctcactttagtttcctatctagctttttggatgttccttgatagcaaattctaagactttataatgttcagGCAGAGGTGCTGTATAAACTTATAGAAGATTGTGCTGGTCTTAGAGGTGACGGCTCTGAAATTGTTCTTGACCTGTTTTGTGGAACTGGAACCATTGGTC

Basic information

species Vitis vinifera
transcript Vv09s0002g02670.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g02670.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g09750.1 (Oryza sativa), 3'ss of exon 5
------------------gtatgctgcatgatgaaat-tgaatgtactgtcagct-catgctggttttgatattctgtccctatagtctctcactttagtttcc-tatctagctttttggatgttccttgatagcaaattct--aagactttataatgttcagGCAGAGGTGCTGTATAAACTTATAGAAGATTGTGCTGGTCTTAGAGGTGACGGCTCTGAAATTGTTCTTGACCTGTTTTGTGGAACTGGAACCATTGGTC
                     | |    |  ||| || |  ||||  ||| |  | ||| |  |||    ||| | ||   |      |    ||  | |||   | ||||| |  |||    || |   | ||    | ||  | |  |  ||    | ||||| || || ||||| || ||||| |  || | |||||| ||||  || || |||||||| ||| | |||||| |||| |||||||| |||||||||||||
gtttgttaatgctctgttaggttcgaagtattgacatatctatgtcatgtgacttacattccagttcatgtat-cagttatttccacgttatgctaaaattttggtgtctag-tgcttgagcatttcc-aacagtttttcctgcatggttgcatgtactgcagGCTGATGTTCTGTACAAGCTTATTGGGGAATCTGCTGGGCTTAAGGGAGATGGCTCTGAGATTATCCTTGACTTGTTCTGTGGAACCGGAACCATTGGTC

upper sequence: Vv09s0002g02670.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G115198_T02 (Zea mays), 3'ss of exon 5
gtatgctgcatgatgaaattgaatgtactgtcagctcatgctggttttgatattctgtccctatagtctctca-ctttagtttcctatctagctttttggatgttccttgatagcaaattctaagactttataatgttcagGCAGAGGTGCTGTATAAACTTATAGAAGATTGTGCTGGTCTTAGAGGTGACGGCTCTGAAATTGTTCTTGACCTGTTTTGTGGAACTGGAACCATTGGTC
                                      |   | |    |    | ||   |  |     | | ||||    |  | ||   | ||   | ||||   ||||    |   ||     || |     | ||||| || || || || || ||||| ||||||| |||||| |||| ||| || |||||||||||||||||||| ||||||||||||||||||||||||||| 
-------------------------------------gtatagatgagaaagaccagtaaatggaaaaaatgaactttgaaatgatgtc---ccttcctggtgtttaatgatc-tgagccctctcctttgacttcttgcagGCTGATGTTCTTTACAAGCTTATTGAAGATTCTGCTGGGCTTAAAGGAGATGGCTCTGAAATTGTTCTTGATCTGTTTTGTGGAACTGGAACCATTGGTT

upper sequence: Vv09s0002g02670.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA15G02550.1 (Glycine max), 3'ss of exon 5
gtatgctgcatgatgaaattgaatgtactgtcagctcatgctggttttgatattctgtccctatagtctctcac-tttagtttcctatctagctttttggatgttccttgatagcaaattctaagact-ttataatgttcagGCAGAGGTGCTGTATAAACTTATAGAAGATTGTGCTGGTCTTAGAGGTGACGGCTCTGAAATTGTTCTTGACCTGTTTTGTGGAACTGGAACCATTGGTC
                       | | |  | ||| ||      |||||  ||||| |    |   | || ||  |||  || | ||  |    |  |||   |  ||  | |  ||| | ||    | || |    || ||||||||||  | ||||| ||||||||||||||||||||  | || ||||| ||||| |||||||| |||||||||||||||||||| || || || ||| 
----------------------gtttgcaataagcccaca--aattttggcattctctttagaccctgtcccatattttattccttaaatttagtcatggtcatctctcaagaaaaaaatatatttttattttcccttttagGCAGAGGTTTTATATAAGCTTATAGAAGATTGTGCTGGAGTCAGGGGTGATGGCTCAGAAATTGTCCTTGACCTGTTTTGTGGAACAGGCACAATAGGTT

upper sequence: Vv09s0002g02670.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G42890.1 (Glycine max), 3'ss of exon 6
gtatgctgcatgatgaaattgaatgtactgtcagctcatgctggttttgatattctgtccctatagtctctcac-tttagtttcctatctagctttttggatgttccttgatagcaaattctaagact-ttataatgttcagGCAGAGGTGCTGTATAAACTTATAGAAGATTGTGCTGGTCTTAGAGGTGACGGCTCTGAAATTGTTCTTGACCTGTTTTGTGGAACTGGAACCATTGGTC
                       | | |  | ||| ||      |||||  ||||| |    |   | || ||  |||  |||| ||  |    |  |||       |  | |  |||    |    | || |    || ||||||||||  | || || ||||||||||||||||||||  | |  ||||||| ||| |||||||| |||||||||||||||||||| || ||||| ||||
----------------------gtttgcaatgagcccaaa--aattttggcattctctttagaccctgtcccatattttatttcttaaatttagtcatggtcacctgtcaagaaaaaaaatcatttttattttcccttttagGCAGAGGTTTTATACAAGCTTATAGAAGATTGTGCTGGAGTCAAGGGTGACGACTCAGAAATTGTCCTTGACCTGTTTTGTGGAACAGGCACCATAGGTC

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|110360458|gb|EC923573.1|EC923573
EST:     AATACACATCAG                         GCAGAGGTGCTGTATAAACTTATAGAAGATTGTGCTGGTCTTAGAGGTGAC
genomic: AATACACATCAGgtatgctgca ... taatgttcagGCAGAGGTGCTGTATAAACTTATAGAAGATTGTGCTGGTCTTAGAGGTGAC
EST: gi|30326526|gb|CD009788.1|CD009788
EST:     TCACATTTCAAATTTCAGCCAACTCCTTTTTCCAAACAAATACACATCAG                         GCAGAGGTGCTCTATAAACTTATAGAAGATTGTGCTGGTCTTAGAGGTGAC
genomic: TCACATTTCAAATTTCAGCCAATTCCTTTTTCCAAACAAATACACATCAGgtatgctgca ... taatgttcagGCAGAGGTGCTGTATAAACTTATAGAAGATTGTGCTGGTCTTAGAGGTGAC
EST: gi|30325919|gb|CD009181.1|CD009181
EST:     TCACATTTCAAATTTCAGCCAACTCCTTTTTCCAAACAAATACACATCAG                         GCAGAGGTGCTCTATAAACTTATAGAAGATTGTGCTGGTCTTAGAGGTGAC
genomic: TCACATTTCAAATTTCAGCCAATTCCTTTTTCCAAACAAATACACATCAGgtatgctgca ... taatgttcagGCAGAGGTGCTGTATAAACTTATAGAAGATTGTGCTGGTCTTAGAGGTGAC
EST: gi|30326234|gb|CD009496.1|CD009496
EST:     TCACATTTCAAATTTCAGCCAACTCCTTTTTCCAAACAAATACACATCAG                         GCAGAGGTGCTCTATAAACTTATAGAAGATTGTGCTGGTCTTAGAGGTGAC
genomic: TCACATTTCAAATTTCAGCCAATTCCTTTTTCCAAACAAATACACATCAGgtatgctgca ... taatgttcagGCAGAGGTGCTGTATAAACTTATAGAAGATTGTGCTGGTCTTAGAGGTGAC
EST: gi|37189974|gb|CF609323.1|CF609323
EST:     TCACATTTCAAATTTCAGCCAACTCCTTTTTCCAAACAAATACACATCAG                         GCAGAGGTGCTCTATAAACTTATAGAAGATTGTGCTGGTCTTAGAGGTGAC
genomic: TCACATTTCAAATTTCAGCCAATTCCTTTTTCCAAACAAATACACATCAGgtatgctgca ... taatgttcagGCAGAGGTGCTGTATAAACTTATAGAAGATTGTGCTGGTCTTAGAGGTGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctagctttttggatgttccttgatagcaaattctaagactttataatgttcagGCAGAGGTGCTGTATAAACTTATAGAAGATTGTGCTGGTCTTAGAGGTGACGGCTCTGAAATTGTTCTTGACCTGTTTTGTGGAACTGGAACCATTGGTC
                   ccttgat  putative branch site (score: 5)
                                   taagactttataat  TA-rich tract