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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTCTGATATACTCAAAGCAGgtgaatagcatgatctaggttttcgttgcctcttaaacaaaatatatgttttttttctttttcctgtaaaatttgtttcttatctgttactactttttttatcagtaatattttattattgaattatgggcatttagagtaactgtgttttcttcgtcgctgtag

Basic information

species Vitis vinifera
transcript Vv13s0067g01290.t01
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GRMZM2G057576_T02 (Zea mays), 5'ss of exon 11
TGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTCTGATATACTCAAAGCAGgtgaata-gcatgatctaggttttcgttgcctcttaaacaaaatatatgttttttttctttttcctgtaaaatttgtttcttatctgttactactttttttatcagtaatattttattattgaattatgggcatttagagtaactgtgttttcttcgtcgctgtag
|||||| |||||||| || || || || ||||| || ||||||||||| || ||||||||  |  |||||||||||||||| || ||||| |||||||||||   |  || |    || ||    ||    | |||   | |    |  ||    || | ||| |                                                                                                     
TGCACTGAAAATATACATCAAGGCCAGGGCAACCCCTAAAGTTGTTGCTGCTTTTGCTGAAAGGAGGGAGTTTGACAAAATACTTATATATTCAAAGCAGgtatgtttgctttggttatgtggaagtccttttttagttatacctgaccttgaacttttgttttccag--------------------------------------------------------------------------------------------------

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GRMZM2G430947_T01 (Zea mays), 5'ss of exon 2
TGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTCTGATATACTCAAAGCAGgtgaatagcatgatctag--gttttcgttgcctcttaa-acaaaatatatgttttttttctttttcctgtaaaatttgtttcttatctgttactactttttttatcagtaatattttattattgaattatgggcatttagagtaactgtgttttcttcgtcgctgtag
|||||| |||||||| || || || || ||||| || ||||||||||| || ||||||||  |  ||||||||||||| |  ||||||||||||||||||||   |    || | |    | ||  |||  |  ||     ||   || ||   ||    ||||   | || || ||| |||     ||     |||                                                                       
TGCACTGAAAATATACATAAAGGCTAGGGCAACCCCTAAAGTTGTTGCTGCTTTTGCTGAAAGGAGGGAGTTTGACAAGACACTGATATACTCAAAGCAGgttcgttatttggttttattgattctgttttcagttgttgtaactcatttgagcttcacattttatttctacaacttggttccaggttgggtacactcca--------------------------------------------------------------------

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GRMZM2G591258_T01 (Zea mays), 5'ss of exon 7
TGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTCTGATATACTCAAAGCAGgtgaatagcatgatctaggt--tttcgttgcctcttaa-acaaaatatatgttttttttctttttcctgtaaaatttgtttcttatctgttactactttttttatcagtaatattttattattgaattatgggcatttagagtaactgtgttttcttcgtcgctgtag
                            |  || || ||||||||||| || ||||||||  |  ||||||||||||| || ||||||||||||||||||||   |    || | |   |  ||  |||  |  ||     ||   || ||   ||    ||||   | || || |||  ||                                                                                      
----------------------------GGCACCCCTAAAGTTGTTGCTGCATTTGCTGAAAGGAGGGAGTTTGACAAGATACTGATATACTCAAAGCAGgttcgttatttggttttattgattctgttttcagttgttgtaactcatttgagcttcaaattttatttctacaacttgggtccag-----------------------------------------------------------------------------------

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GLYMA02G42560.1 (Glycine max), 5'ss of exon 13
TGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTCTGATATACTCAAAGCAGgtg---aatagcatgatctaggttttcgttgcctcttaaacaaaatatatgttttttttctttttcctgtaaaatttgtttcttatctgttactactttttttatcagtaatattttattattgaattatgggcatttag----agtaactgtgtt--ttcttcgtcgctgtag
|||  | ||||||||||| ||||| ||||| ||||| ||||||||||| || ||||||||| |  |||||||||||||||||||||| ||||| || ||||||     |  | |     ||  | | |  |  |  |  | | |||| || |  |  |  | |  | || | |   | ||| | | |   ||  | | |  ||    ||| |    | | |||  | | |   | ||| |        | ||| ||  || || || ||| |||
TGCTTTAAAAATATATATCAAAGCCAGAGCTACTCCAAAAGTTGTTGCTGCATTTGCTGAGAGGAGGGAGTTTGACAAAATTCTGATTTACTCTAAACAGgtgcctgcttacttatcaaagaatattgaagtttaatccatagaata-atttagtgctattatggcatgcatagcat-tttgtcaccctgtataattataattgcatgtattgccctttcattttactgtaaacgtttggtcctgaacattgtattacttatttgttgctatag

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GLYMA14G06340.2 (Glycine max), 5'ss of exon 13
TGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTCTGATATACTCAAAGCAGgtg---aatagcatgatctaggttttcgttgcctcttaaacaaaatatatgttttttttctttttcctgtaaaatttgtttcttatctgttactactttttttatcagtaatattttattattgaattatgggcatttag----agtaactgtgtt--ttcttcgtcgctgtag
|||  | ||||||||||| ||||| ||||| ||||| ||||||||||| || ||||||||| |  |||||||||||||||||||||| ||||| || ||||||     |  | |     ||  | | |  || |  |  | | ||||  | |  |  |  | |  | |||| |   | ||   || |||| |  | | |  ||    ||| |    | | |||  | | |   ||||| |        | ||| ||  || || || ||| |||
TGCTTTAAAAATATATATCAAAGCCAGAGCTACTCCAAAAGTTGTTGCTGCGTTTGCTGAGAGGAGGGAGTTTGACAAAATTCTGATTTACTCTAAACAGgtgcctgtttacttatcaaagaatattgaagcttaatccatagaataattttaatgctattatggcatgtatagcattttgtctacctgt-ataattatcattgcatgtattgcactttcattttactgtaaacatttggtcctgaacattgtattacttatttgttgctatag

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GLYMA11G35460.1 (Glycine max), 5'ss of exon 13
TGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTCTGATATACTCAAAGCAGgtgaatagcatgatctaggttttcgttgcctcttaaacaaaat-atatgttttttttct--ttttcctgtaaaatttgtt--------tcttatctgttactacttt-------ttttatcagtaatattttattattgaattatgggcatt--tagagtaa-ctgtgttt-----tcttcgtcgctgtag---------
|||  | |||||||| || ||||| ||||| ||||| ||||||||||| || ||||||||| |  ||||||||||||| |||||||||||||| ||||||||  | ||| || | || || |    |    || |       | || || || |||| |  || || ||| |||||  ||        | | | || |      |||        | ||| | ||| |||  ||   |    | ||    ||  | ||  ||  ||||  |     | ||| |  || |           
TGCCTTAAAAATATACATCAAAGCCAGAGCTACTCCAAAAGTTGTTGCTGCTTTTGCTGAGAGAAGGGAGTTTGACAAGATTCTGATATACTCTAAGCAGgtaga-agcttg-tttatgtatcaaataatactgatttttgttcatctgattcttttgtgcttctcttgttaaattctttaatattgttatgacctatagaggttttaattggcctgtataattaacattgcatatcttgcctttgcattttactggaacaaattgtggctgatcattttcattactttttccgctacag

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GLYMA18G02960.1 (Glycine max), 5'ss of exon 13
TGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTCTGATATACTCAAAGCAGgtgaatagcatgatctaggttttcgttgcctcttaaacaaaatatatgttttttttctttttcctgtaaaatttgtttcttatctgttactactttttttatcagtaatattttattattgaattatgggcatttagagtaactgtgttttcttcgtcgctgtag
|||  | |||||||| || ||||| ||||| ||||| ||||||||||| || ||||||||| |  ||||||||||||| ||||| |||||||| ||||||||  |  || ||        |||  ||   | | ||| ||  ||    ||||| ||| |     |||    |||||   |    |||||     |||  |||  || ||    |||                                                 
TGCTTTAAAAATATACATCAAAGCCAGAGCTACTCCAAAAGTTGTTGCTGCTTTTGCTGAGAGAAGGGAGTTTGACAAGATTCTAATATACTCTAAGCAGgtaga-ggcttg--------tttatttatgtatcaaataa--tactgatttttgttcatcagattgt----tttgtgcttctcttgttaaattctttaatatt-gttatgacctat-------------------------------------------------

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 13
TGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTCTGATATACTCAAAGCAGgtgaatagcatgatctaggttttcgttgcctcttaaacaaaatatatgttttttttc-tttttcctgtaaaatttgtttcttatctgttactactttttttatcagtaatattttattattgaattatgggcatttagagtaactgtgttttcttcgtcgctgtag
||| || |||||||| || ||||| ||||| ||||| ||||| |||||||| ||||| |||||  ||||||||||||||||  |||| || ||||||||||| || |      | |     || |   ||||       |  | ||   |     || || | |     |  |    || || | ||||   ||| |                                                                     
TGCTCTAAAAATATACATCAAAGCTAGAGCTACTCCAAAAGTCGTTGCAGCTTTTGCAGAGCGAAGGGAGTTTGACAAAATATTGATTTATTCAAAGCAGgtaaacaattaagttttaaagtttgccccctccgttgttatgtttaccctaaaggtcattgtgctcaagaggtaccattgttttatgttgtgactctag-------------------------------------------------------------------

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 5'ss of exon 13
TGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTCTGATATACTCAAAGCAGgtgaatagcatgatctaggttttcgttgcctcttaaacaaaatatatgttttttttct-ttttcctgtaaaatttgtttcttatctgttactactttttttatcagtaatattttattattgaattatgggcatttagagtaactgtgttttcttcgtcgctgtag
 || || |||||||| || |||||  | || ||||| |||||||| ||||| ||||| ||  |  |||||||||||||||| ||||| |||||||||||||| |  |  | ||||||   |    |  ||||||  |  |  | ||   |    |||| || ||   | || |    || ||   | ||   ||||                                                                      
CGCTCTGAAAATATACATCAAAGCTCGGGCGACTCCAAAAGTTGTAGCAGCTTTTGCAGAAAGAAGGGAGTTTGACAAAATACTGATTTACTCAAAGCAGgtaagcaataagatctatagt---ataacctcttctattatttttaccctaaagttctgttgtctcatgaattaccattgtttcatattgtgacttcag-------------------------------------------------------------------

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: PP1S452_30V6.1 (Physcomitrella patens), 5'ss of exon 14
TGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTCTGATATACTCAAAGCAGgtgaatagcatgatctaggttttcgttgcctcttaaacaa--aatatatgttttttttctttttcctgtaaaatttgtttcttatctgttactactttttttatcagtaatattttattattgaattatgggcatttagagtaactgtgttttcttcgtcgctgtag
 ||  | ||||| || || || || || || || || || || |||||||| ||||||||||| || |||||||| || |||||||| ||||| |||||||| | |  |||| || |  | || | || |||||   |    |  |  || ||| |||| |||  |  |  | ||         | |   | | | ||| || |  ||           |    |  |   |  | | |  | || |   ||| | |  | ||||||
GGCTTTGAAAATTTACATAAAGGCCAGGGCTACACCCAAGGTGGTTGCAGCTTTTGCTGAGCGGCGAGAGTTTGATAAGATTCTGATTTACTCCAAGCAGgttagt--catgctcaaaatatttgatggctcttggcctttcacaacgtgctttgtttcctttggcattgcatttcagg----gtattcaattgcctttcttctttgtgcgggggagcaaacctac-acacgtgtattgtttgac-gcagtttttcctacactgtag

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:     CCTTTGCTGAGCGTCGGGAGTTTGACAAAATTCTGATATACTCAAAGCAG                         GTTGGGTATACTCCTGATTATTTGTTCCTTCTGCAAACCATTCTTCGATCA
genomic: CCTTTGCTGAGCGTCGGGAGTTTGACAAAATTCTGATATACTCAAAGCAGgtgaatagca ... gtcgctgtagGTTGGGTATACTCCTGATTATTTGTTCCTTCTGCAAACCATTCTTCGATCA