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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCACTTCTACCTGCAGGAACATCCTGATCTTATTAATGATCTCCTTAATGTGCTTGCTCTTCGTGTGGACCACACTCGGGTTGTTGACATAATGCGAAAGgtctgcatgtttgcttactctttatgtgatggatattgctgtgtgcttcttttagtgggaacaaatgattaaaagtttaaaaatggttttgtcaatggtatcttatgcttatgatctctttgggtttcag

Basic information

species Vitis vinifera
transcript Vv06s0004g06860.t01
intron # 25
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 25
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 5'ss of exon 25
GCACTTCTACCTGCAGGAACATCCTGATCTTATTAATGATCTCCTTAATGTGCTTGCTCTTCGTGTGGACCACACTCGGGTTGTTGACATAATGCGAAAGgtctgcatgtt-tgcttactctttatgtgatggatattgctgtgtgcttcttttagtgggaacaaatgattaaaagtttaaaaatggttttgtcaatggtatcttatgcttatgatctctttgggtttcag
||||||||| ||||| || ||||||||||| || ||||| || || ||||| ||||| |||||| |||| || ||  | || || ||||||||||| ||||| ||  | || ||      | || | |   |  |||   | | ||||   |||         ||||  | ||  ||||||  ||  |||   ||                                    
GCACTTCTATCTGCAAGAGCATCCTGATCTCATCAATGACCTTCTCAATGTACTTGCGCTTCGTTTGGATCATACAAGAGTCGTGGACATAATGCGCAAGgtttgtttcttatggcagggccttctattg-gtctatcagttt-tgctctgtttca-------aaattttgaactgtttaattattatttgtacag-----------------------------------

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 25
lower sequence: GRMZM5G822591_T01 (Zea mays), 5'ss of exon 2
GCACTTCTACCTGCAGGAACATCCTGATCTTATTAATGATCTCCTTAATGTGCTTGCTCTTCGTGTGGACCACACTCGGGTTGTTGACATAATGCGAAAGgtctgcatgtttgcttactctttatgtgatggatattgctgtgtgcttcttttagtgggaacaaatgattaaaagtttaaaaatggttttgtcaatggtatcttatgcttatgatctctttgggtttcag
 ||||||||  ||||||| ||||||||||| || |||||| | || ||||||||||| |||||| | || || ||  | ||||| ||||||||||| |||||  |||| |                  ||| | |||  | | | |||     | |  | | | | |       ||||  ||||   ||   | |   | |    ||  |     ||||||||       
TCACTTCTATTTGCAGGAGCATCCTGATCTCATCAATGATATGCTGAATGTGCTTGCACTTCGTTTAGATCATACCAGAGTTGTAGACATAATGCGCAAGgttagcatctg----------------aatgaaaatt--tatttccttagcgcactttggatagaagccct---gttttcaaattccttcccccaaaatctgacttgtcttgttgctctttggacag---

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 25
lower sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 2
GCACTTCTACCTGCAGGAACATCCTGATCTTATTAATGATCTCCTTAATGTGCTTGCTCTTCGTGTGGACCACACTCGGGTTGTTGACATAATGCGAAAGgtctgcatgtttgcttactctttatgtgatggatattgctgtgtgcttcttttagtgggaacaaatgattaaaag---tttaaaaatggttttgtcaatggtatcttatgcttatgatctctttgggtttcag
 ||||||||  |||| || ||||||||||| || |||||| | || ||||||||||| |||||| | || || ||  | ||||| ||||||||||| |||||  ||||           ||  ||| ||    |||| |  |      |||| | | | | |   || || |||    ||  |||||  |  ||||  || |    | ||   |                   
TCACTTCTATTTGCAAGAGCATCCTGATCTCATCAATGATATGCTGAATGTGCTTGCACTTCGTTTAGATCATACCAGAGTTGTAGACATAATGCGCAAGgttagcat-----------ctgaatg-gaaatttatttccttagcgcactttgaatagaagccc-tgtttcaaattccttccaaaatcttactgtct-tgttgctctttggacag------------------

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 25
lower sequence: GLYMA14G37510.1 (Glycine max), 5'ss of exon 23
GCACTTCTACCTGCAGGAACATCCTGATCTTATTAATGATCTCCTTAATGTGCTTGCTCTTCGTGTGGACCACACTCGGGTTGTTGACATAATGCGAAAGgtctgcatgtttgcttactctttatgtgatggatattgctgtgtgcttcttttagtgggaacaaatgattaaaagtttaaaaatggttttgtcaatggtatcttatgct-tatgatctctt-tgggtttcag
 ||||||||| |||| |||||||||||| |||| |||||||| |||||||| ||||| ||||||||||||||||| || ||||| || |||||||| |||||||| | || |  || || ||| | | |||  |   | | |   |||||||| |||     || | | |||  |||| |||||  |||   ||||  | |  | || |   |||| | || ||| ||| ||
TCACTTCTACTTGCAAGAACATCCTGATATTATAAATGATCTTCTTAATGTACTTGCCCTTCGTGTGGACCACACCCGTGTTGTGGATATAATGCGGAAGgtctgtaggtctcatt-ctattt-tctaatgtgttaagttttaatcttcttttggtg-----aagttaataactgtttgaaaatattttatgcaatattcttatttgttgcttgattttttctggtttttag

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 25
lower sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 25
GCACTTCTACCTGCAGGAACATCCTGATCTTATTAATGATCTCCTTAATGTGCTTGCTCTTCGTGTGGACCACACTCGGGTTGTTGACATAATGCGAAAGgtctgcatgtttgcttactct-ttatgtgatggatattgctgtgtgcttcttttagtgggaacaaatgattaaaagtttaaaaatggttttgtcaatggtatcttatgct-tatgatctctt-tgggtttcag
 ||||||||| |||| |||||||||||| || | |||||||| |||||||| ||||| || |||||||||||||| || ||||| || |||||||| |||||||| ||||   || | ||| || | | |||  |   |   |   ||| |||| ||| |   ||     |||  |||  |||||  |||   ||||  | |  | || |   |||| | || ||| ||| ||
TCACTTCTACTTGCAAGAACATCCTGATATTTTAAATGATCTTCTTAATGTACTTGCCCTACGTGTGGACCACACCCGTGTTGTGGATATAATGCGGAAGgtctgtatgt---ctcagtctgttttctaatgtgttaagtcttaatcttattttggtgaggttaa-----taaccgttcgaaaatattttatgcaatattcttatttgttgcttgattttttatggtttttag

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 25
lower sequence: GLYMA01G38580.1 (Glycine max), 5'ss of exon 25
GCACTTCTACCTGCAGGAACATCCTGATCTTATTAATGATCTCCTTAATGTGCTTGCTCTTCGTGTGGACCACACTCGGGTTGTTGACATAATGCGAAAGgtctgcatgtttgcttactctttatgtgatggatattgctgtgtgcttcttttagtgggaacaaatgattaaaagtttaaaaatggttttgtcaatggtatcttatgcttatgatctctttgggtttcag
 ||||||||| |  | || ||||| ||| | || |||||| | || |||||| ||||||||||||||||||| ||||| || || || |||||||| ||||||||||  |||  |  |   ||     |||| ||  | |     ||| |||  |  |  | || |   |     || |||     || ||| ||| ||||  | || |  |    | |||   ||||||
TCACTTCTACTTCAAAGAGCATCCAGATGTAATAAATGATATGCTAAATGTGATTGCTCTTCGTGTGGACCATACTCGTGTAGTAGATATAATGCGGAAGgtctgca-atttcataccctattgccaaatggctacagtttcaatcttattt--ggagagataatttgctggt--ttcaaatgctattctgt-aatagtattgtttgttgcttggattttttattttcag

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 25
lower sequence: GLYMA11G06720.1 (Glycine max), 5'ss of exon 25
GCACTTCTACCTGCAGGAACATCCTGATCTTATTAATGATCTCCTTAATGTGCTTGCTCTTCGTGTGGACCACACTCGGGTTGTTGACATAATGCGAAAGgtctgcatgtttgcttactct-ttatgtgatggatattgctgtgtgcttcttttagtgggaacaaatgattaaaagtttaaaaatggttttgtcaatggtatcttatgcttatgatctctttgggtttcag
 ||||||||| || | |||||||| ||| | || |||||| |  | |||||| ||||||||||||||||||| ||||| || || || || ||||  ||||||||||  ||| | ||| || || |   |||  ||  | |     ||| |||  ||| ||  |  || |      ||||||     ||  || |||  |||  | || |  |    | |||    |||||
TCACTTCTACTTGAAAGAACATCCAGATATAATAAATGATATGTTAAATGTGATTGCTCTTCGTGTGGACCATACTCGTGTAGTAGATATTATGCAGAAGgtctgca-attttcataccctattgtcaaatgcctacggtttcaatcttattt-ggtgagataacttgct---ggctttaaatgctattcagt-aataatattgtttgttgcttggatttttta--ttcag

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|30251298|gb|CB969031.1|CB969031
EST:     TGCTTGCTCTTCGTGTGGACCACACTCGGGTTGTTGACATAATGCGAAAG                         GCTGGTCACCTTCATCTTGTGAAGCCCTATATGGTTGCTGTTCAGAGTACT
genomic: TGCTTGCTCTTCGTGTGGACCACACTCGGGTTGTTGACATAATGCGAAAGgtctgcatgt ... tgggtttcagGCTGGTCACCTTCATCTTGTGAAGCCCTATATGGTTGCTGTTCAGAGTACT
EST: gi|30252045|gb|CB968684.1|CB968684
EST:     TGCTTGCTCTTCGTGTGGACCACACTCGGGTTGTTGACATAATGCGAAAG                         GCTGGTCACCTTCATCTTGTGAAGCCCTATATGGTTGCTGTTCAGAGTACT
genomic: TGCTTGCTCTTCGTGTGGACCACACTCGGGTTGTTGACATAATGCGAAAGgtctgcatgt ... tgggtttcagGCTGGTCACCTTCATCTTGTGAAGCCCTATATGGTTGCTGTTCAGAGTACT
EST: gi|349826023|gb|FQ415828.1|FQ415828
EST:     TGCTTGCTCTTCGTGTGGACCACACTCGGGTTGTTGACATAATGCGAAAG                         GCTGGTCACCTTCATCTTGTGAAGCCCTATATGGTTGCTGTTCAGAGTACT
genomic: TGCTTGCTCTTCGTGTGGACCACACTCGGGTTGTTGACATAATGCGAAAGgtctgcatgt ... tgggtttcagGCTGGTCACCTTCATCTTGTGAAGCCCTATATGGTTGCTGTTCAGAGTACT
EST: gi|351040418|gb|FQ434551.1|FQ434551
EST:     TGCTTGCTCTTCGTGTGGACCACACTCGGGTTGTTGACATAATGCGAAAG                         GCTGGTCACCTTCATCTTGTGAAGCCCTATATGGTTGCTGTTCAGAGTACT
genomic: TGCTTGCTCTTCGTGTGGACCACACTCGGGTTGTTGACATAATGCGAAAGgtctgcatgt ... tgggtttcagGCTGGTCACCTTCATCTTGTGAAGCCCTATATGGTTGCTGTTCAGAGTACT
EST: gi|110695085|gb|EE072702.1|EE072702
EST:     TGCTTGCTCTTCGTGTGGACCACACTCGGGTTGTTGACATAATGCGAAAG                         GCTGGTCACCTTCATCTTGTGAAGCCCTATATGGTTGCTGTTCAGAGTACT
genomic: TGCTTGCTCTTCGTGTGGACCACACTCGGGTTGTTGACATAATGCGAAAGgtctgcatgt ... tgggtttcagGCTGGTCACCTTCATCTTGTGAAGCCCTATATGGTTGCTGTTCAGAGTACT