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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaattggttcttgcaattcattttattttattttttaccttttttattgttacatgaaattaattatacgtcttggttaaaacacttatattttgtgcagCATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAG

Basic information

species Vitis vinifera
transcript Vv13s0067g01290.t01
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 17
gtgaaattggttcttgcaattcattttattttattttttaccttttttattgttacatgaaattaattatacgtcttggttaaaacacttatattttg-tgcagCATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAG
                   |   |    |||| || |||   |  |||| | ||   |    ||   | |  || ||  |||| |   ||||||| || |||||||||| || || || |||||||| || || ||||| |||||||| ||||| ||||||||||||
------------------gtcagtacctttttgttgttt---tggtttacttttttttttctttgcctgtctgt-ttaattaaca---ttatattgtgatgcagCATTACACAGAATTACCAGATATCAAGCGTGTCATGGTGAATACCCATGCCATTGAGCCACAG

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 17
gtgaaattggttcttgcaattcattttattttattttttaccttttttattgttacatgaaattaattatacgtcttggttaaaacacttatattttg-tgcagCATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAG
                   |   |    |||| || |||   |||  | || ||   |    ||   | |  || ||  |||| |   ||||||| || |||||||||| || || || |||||||| || || ||||| |||||||| ||||| ||||||||||||
------------------gtcagtacctttttgttgttttggtttactttttttttct----ttgcctgtctgt-ttaattaaca---ttatattgtgatgcagCATTACACAGAATTACCAGATATCAAGCGTGTCATGGTGAATACCCATGCCATTGAGCCACAG

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 15
gtgaaattggttcttgcaattcattttattttattttttaccttttttattgttacatgaaattaattatacgtcttggttaaaacacttatattttgtgcagCATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAG
  |    |     |||||  |  ||||   | || | ||  || ||| ||   |   | |||  |||      | ||                  |  ||||||||||| | |||||||| ||||| || || |||||||| ||||| ||||| |||||||| |||
--gtcggtaacctttgca--ttgttttggctgatctctt--ctctttaatctctgtgttaaaccaatatcgtatttt-----------------ctgatgcagCATTATTCAGAGTTGCCTGATATCAAGCGTGTCATTGTAAATACTCATGCCATTGAGCCCCAG

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 16
gtgaaattggttcttgcaattcattttattttattttttaccttttttattgttacatgaaattaattatacgtcttggttaaaacacttatattttgtgcagCATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAG
     | ||  ||    |||   ||||||| |   |  |   ||| ||||| | ||   ||     |      | ||| ||| |    |||| ||| ||||||||||| || |||||||||||||||||||| || ||||| ||||||||||||||||||||||||
---gtaatgactcaccaaatgtgttttattct---tactggttttcttatt-taacccaaaggccttctcttttattgattaca----ttatttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTAATTGTAAATACACATGCAATTGAGCCACAG

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 16
gtgaaattggttcttgcaattcattttattttattttttaccttttttattgttacatgaaattaattatacgtcttggttaaaacacttatattttgtgcagCATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAG
     | ||  ||    |||   ||||||| |   |  |   ||| ||||| | ||   |||    |      |  || ||| |     ||| ||| ||||||||||| || |||||||||||||||||||| || ||||| ||||||||||||||||||||||||
---gtaatgactcaccaaatgtgttttattat---tactggttttcttatt-taacccaaaagccttctcttttactgattaca----ctatttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTGATTGTAAATACACATGCAATTGAGCCACAG

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA14G06340.2 (Glycine max), 3'ss of exon 17
gtgaaattggttcttgcaattcattttattttattttttaccttttttattgttacatgaaattaattatacgtcttggttaaaacacttatattttgtgcagCATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAG
     |  |  |||   |||   ||||||| |    |  || || | |||  | |  | |||   || | ||  |||  || |     ||||  || ||||||||||| || || || ||||| || |||||||| ||||| ||||||||||||||||| || |||
---gtaaggactctccaaatgtgttttattct----tgcactttctctatgttaatcttaaa---atcaaac-ccttaattgattgcattattcttggtgcagCATTACACAGAATTACCAGACATCAAACGCGTGATTGTTAATACACATGCAATTGAACCTCAG

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 17
gtgaaattggttcttgcaattcattttattttattttttaccttttttattgttacatgaaattaattatacgtcttggttaaaacacttatattttgtgcagCATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAG
         ||| ||||      | || ||| || || |       | || | |  ||    ||  ||   | |||   ||      ||| |  ||||||||||||||  | ||||| || ||||| ||||| || |||||||| |||||||| ||||||||||||
---------gtttttgctcaatgtcttctttaatattct--tggcctaatagatgtatt---tttttttcccctctaacttcgtttccttttgctttgtgcagCATTACTCAGAGTTACCTGATATCAAACGTGTAATTGTGAACACACATGCTATTGAGCCACAG

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 17
gtgaaattggttcttgcaattcattttattttattttttaccttttttattgttacatgaaattaattatacgtcttggttaaaaca-------cttatattttgtgcagCATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAG
                       ||      | ||||||||| ||||||  |    |  | ||| || ||         ||  |||        ||| |  ||||||||||||||  | ||||| || ||||||||||| || ||||| || |||||||| || |||||||||
----------------------gttggtacatgttttttaccatttttaccggccaaatagatttatcatcttctcaccttccaacttcttttccttttgatttgtgcagCATTACTCAGAGTTACCTGATATAAAACGTGTAATTGTAAACACACATGCTATCGAGCCACAG

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|122689653|gb|EC942290.1|EC942290
EST:     GGATTGCCCAGCTTTGTGAAAAAGCTGGTCTTTATGTGCGAGCCCTTCAG                         CATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCA
genomic: GGATTGCCCAGCTTTGTGAAAAAGCTGGTCTTTATGTGCGAGCCCTTCAGgtgaaattgg ... ttttgtgcagCATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgttacatgaaattaattatacgtcttggttaaaacacttatattttgtgcagCATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAG
            aattaat  putative branch site (score: 3)
     tacatgaaattaatta  TA-rich tract