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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGACAGCAGGGTTCATATCCTATCAAGCTGTTCTACACCTCCAACATGCCCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAGgtactggagctttaagcttgtatacacaggttggggtcattttcttctggtgttatactaacaattttatttcttacag

Basic information

species Vitis vinifera
transcript Vv00s0551g00030.t01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0551g00030.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os09g17840.1 (Oryza sativa), 5'ss of exon 3
TGGACAGCAGGGTTCATATCCTATCAAGCTGTTCTACACCTCCAACATGCCCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAGgt----actggagctttaa--gctt-----gtatacaca-ggttggggtcattttcttctggt----------gttatactaacaattttatttcttacag
 || ||||| || |||||||| || ||| |||||||||| || ||||||||||||||||| || ||||| ||  |||||||||| ||||| ||||| |||||     ||| |  | ||   ||||      |||  ||| |  || |    ||||    || |          ||| ||  |   ||||  ||| || |||
GGGGCAGCAAGGCTCATATCCAATTAAGTTGTTCTACACTTCAAACATGCCCATCATTCTGCACTCTGCACTGATTACCAACCTCTACTTCATATCACAGgtgcgtgctgtaattgtagtggctttagtaatatttacatgactgagcaagttttaacatgataactgagcaagttttaacatatatttattttgttgcag

upper sequence: Vv00s0551g00030.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os09g17830.1 (Oryza sativa), 5'ss of exon 3
TGGACAGCAGGGTTCATATCCTATCAAGCTGTTCTACACCTCCAACATGCCCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAGgtac-tggagctttaagcttgtatacacaggttggggtcattttcttctggtgttatactaacaattttatttc-ttacag
 || ||||| || |||||||| || ||| |||||||||| || ||||||||||||||||| || ||||| ||  |||||||||| ||||| ||||| ||||| | ||  |  ||    |     |   |  ||    | | |    ||  || ||  ||  |   ||||||||  || |||
GGGGCAGCAAGGCTCATATCCAATTAAGTTGTTCTACACTTCAAACATGCCCATCATTCTGCACTCTGCACTGATTACCAACCTCTACTTCATATCACAGgtgcgtgcggtattgtagtgccgcagtaatatttacattactga--tcaagtttttaac--atgtttttattttgttgcag

upper sequence: Vv00s0551g00030.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os03g11440.1 (Oryza sativa), 5'ss of exon 4
TGGACAGCAGGGTTCATATCCTATCAAGCTGTTCTACACCTCCAACATGCCCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAGgtactggagctttaagct--tgtatacacaggttggggtcattttcttctggtgttatactaacaattttat-ttcttacag---
 || || || || ||||| || || |||||||||||||| || ||||||||||||||||| || ||||| ||  |||||||||| || || ||||||||||| ||| |  |  |  |   ||  |   || | |       |  | ||   || |   | |||||  ||| | ||  |   |   
CGGTCAACAAGGCTCATACCCAATTAAGCTGTTCTACACTTCAAACATGCCCATCATTCTGCATTCTGCACTGATTACCAACCTCTATTTCATATCCCAGgt-ctgaacttcaattccactgctttagcaagataaatctttaatgtttgtgtttagcattaacatgtttgtattgctttggcag

upper sequence: Vv00s0551g00030.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G130987_T04 (Zea mays), 5'ss of exon 3
TGGACAGCAGGGTTCATATCCTATCAAGCTGTTCTACACCTCCAACATGCCCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAGgtactggagctttaagcttgtatacacaggttggggtcattttcttctggtgtta-tactaaca-attttatttc--ttacag
||| ||||| || |||||||| || |||||||||||||| || |||||||||||||| || || ||||| ||  |||||||||| || ||||||||||||||||   |    | |  |   || |    ||  |    || ||||    |||| | | ||||   |||||| | |  | ||||
TGGCCAGCAAGGCTCATATCCAATTAAGCTGTTCTACACTTCAAACATGCCCATCATCCTTCACTCTGCGCTGATTACCAACCTCTATTTTATATCCCAGgtac---acacctcatttctaatgctgcagtaagttatatcttctgtatgtgtaactgctaatgtattttactgctatcacag

upper sequence: Vv00s0551g00030.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G073498_T02 (Zea mays), 5'ss of exon 3
TGGACAGCAGGGTTCATATCCTATCAAGCTGTTCTACACCTCCAACATGCCCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAGgtac----tggagctttaagcttgtatacacaggttggggtcattttcttctggtgtta-tactaaca-attttatttc--ttacag
||| ||||| || |||||||| || ||||| |||||||| || ||||||||||||||||| || ||||| ||  |||||||||| || || |||||||||||||       |  |  ||   ||||     | ||   |     | | |    |||| | | || |   |||||||| |  | ||||
TGGCCAGCAAGGCTCATATCCAATTAAGCTATTCTACACTTCAAACATGCCCATCATTCTGCACTCTGCACTGATTACCAACCTCTATTTCATATCCCAGgtacgcacctcatttccaatgctgta---gtaagtcatgtcttctgtgtgtatgtgtaaatgctgatgtattttattgctatcacag

upper sequence: Vv00s0551g00030.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G307252_T02 (Zea mays), 5'ss of exon 4
TGGACAGCAGGGTTCATATCCTATCAAGCTGTTCTACACCTCCAACATGCCCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAGgtactggagctttaagcttgtatacacaggttggggtcattttcttctggtgttatactaac---aattttatttcttacag
||| || || || ||||| || |||||| ||||||| || ||||||||||| |||||||| || ||||| ||  |||||||||| || || ||||||||||||   | |||| ||       |       |     | || || |  ||   ||  |   ||   || | | | | |  |||
TGGTCAACAAGGCTCATACCCAATCAAGTTGTTCTATACTTCCAACATGCCTATCATTCTGCACTCTGCACTAATTACCAACCTCTATTTCATATCCCAGgtat--gtgcttcaattcca-gtgtttcattacaattgatcttttcatgaatttgcatggactaaaaatgtttctatggcag

upper sequence: Vv00s0551g00030.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: PP1S323_56V6.1 (Physcomitrella patens), 5'ss of exon 4
TGGACAGCAGGGTTCATATCCTATCAAGCTGTTCTACACCTCCAACATGCCCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAGgtactggagctttaa-gcttgtatacacaggttggggt---cattttcttctggtgt-tatactaacaattttatttcttacag-----------------------------------------------------
||| || || || || ||||||||||| || ||||||||||||||||||||||||||||| |||  ||| || ||  ||||| | ||||| || || |||||| |     | |    ||||| | ||     |   |    || ||||||  |   |    | || |  | | | |  || ||                                                      
TGGTCAACAAGGATCTTATCCTATCAAACTATTCTACACCTCCAACATGCCCATCATTCTTCAGAGTGCCCTCGTATCCAACTTGTACTTCATTTCACAGgtattttttttctgttacttgtcttcaatctatacagcttgcaatttctttagcaatgcgaagtatcgttgtcaatggtttcaactcattaacttcttggaattaattaaaattcaaaagacttgtcgtcttttcag

upper sequence: Vv00s0551g00030.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: PP1S114_48V6.1 (Physcomitrella patens), 5'ss of exon 4
TGGACAGCAGGGTTCATATCCTATCAAGCTGTTCTACACCTCCAACATGCCCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAGgtactggagctttaagcttgtataca--caggttggggtcattttcttctggt-gttatactaacaattttatttcttacag----------
 || || || || || || ||||| ||| ||||||||||||||||||||||||||||||| |||   || |||||  ||||| | ||||| || || |||||   |   || |   |||||  ||   |   || | ||||  |  |||||   |   |    ||    ||  || |    |          
CGGTCAACAAGGATCTTACCCTATTAAGTTGTTCTACACCTCCAACATGCCCATCATTCTCCAGAGCGCCCTTGTCTCCAACTTGTACTTCATTTCACAGgt-tcgcctctctgttcttgttgactgtcgcattcgtgtcaagtaattctgaaagacgtgtctactcacttgcttttgtttgtgtgttccag

upper sequence: Vv00s0551g00030.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: EFJ11193 (Selaginella moellendorffii), 5'ss of exon 3
TGGACAGCAGGGTTCATATCCTATCAAGCTGTTCTACACCTCCAACATGCCCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAGgtactggagctttaagcttgtatacacaggttggggtcattttcttctggtgttatactaacaattttatttcttacag
||||||||||||||  ||||| |||||||| |||||||| || || ||||| |||||||| ||||| || || ||  | ||| | ||||| || || ||||||         |  ||||   | | | |||||      || | ||||||| |  | | |                   
TGGACAGCAGGGTTTCTATCCCATCAAGCTCTTCTACACTTCGAATATGCCTATCATTCTCCAGTCGGCGCTCGTCTCGAACTTGTACTTCATCTCTCAGgtaagacgtgacttcgctttagttctc-ggttgaaac--ttcttttctggtttacttccag------------------

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|30137500|gb|CB922838.1|CB922838
EST:     CCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAG                         TTGCTGTACAGGAGGTACAGTGGAAATTTCCTGGTAAATCTCTTGGGCAAG
genomic: CCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAGgtactggagc ... tttcttacagTTGCTGTACAGGAGGTACAGTGGAAATTTCCTTGTAAATCTCTTGGGCAAG
EST: gi|110693126|gb|EE069083.1|EE069083
EST:     CCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAG                         TTGCTGTACAGGAGGTACAGTGGAAATTTCCTGGTAAATCTCTTGGGCAAG
genomic: CCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAGgtactggagc ... tttcttacagTTGCTGTACAGGAGGTACAGTGGAAATTTCCTTGTAAATCTCTTGGGCAAG
EST: gi|30128076|gb|CB913415.1|CB913415
EST:     CCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAG                         TTGCTGTACAGGAGGTACAGTGGAAATTTCCTGGTAAATCTCTTGGGCAAG
genomic: CCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAGgtactggagc ... tttcttacagTTGCTGTACAGGAGGTACAGTGGAAATTTCCTTGTAAATCTCTTGGGCAAG
EST: gi|30127111|gb|CB912450.1|CB912450
EST:     CCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAG                         TTGCTGTACAGGAGGTACAGTGGAAATTTCCTGGTAAATCTCTTGGGCAAG
genomic: CCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAGgtactggagc ... tttcttacagTTGCTGTACAGGAGGTACAGTGGAAATTTCCTTGTAAATCTCTTGGGCAAG
EST: gi|77580759|gb|DV219287.1|DV219287
EST:     CCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAG                         TTGCTGTACAGGAGGTACAGTGGAAATTTCCTTGTAAATCTCTTGGGCAAG
genomic: CCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAGgtactggagc ... tttcttacagTTGCTGTACAGGAGGTACAGTGGAAATTTCCTTGTAAATCTCTTGGGCAAG
EST: gi|110369453|gb|EC933613.1|EC933613
EST:     CCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAG                         TTGCTGTACAGGAGGTACAGTGGAAATTTCCTTGTAAATCTCTTGGGCAAG
genomic: CCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAGgtactggagc ... tttcttacagTTGCTGTACAGGAGGTACAGTGGAAATTTCCTTGTAAATCTCTTGGGCAAG
EST: gi|34549150|gb|CF517382.1|CF517382
EST:     TCATTCTACAGTCTGCTCTTGTTANGATCCTATACTTTATATCCCAG                         TTGCTGTACAGGAGGTACAGTGGAAATTTCCTTGTAAATCTCTTGGGCAAG
genomic: TCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAGgtactggagc ... tttcttacagTTGCTGTACAGGAGGTACAGTGGAAATTTCCTTGTAAATCTCTTGGGCAAG