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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTGCTGGGAAAGAAAGTGTGCTATGTTCAGTTCCCACAGAGGTTTGATGGGATTGATAGGCATGATCGATATGCTAACCGGAACATTGTATTCTTTGATgtaagcctgcagttctccatatcttgatgctagttttgatagtttagagcttttctatcgattgacttggtcattttatatgcactag

Basic information

species Vitis vinifera
transcript Vv03s0038g04250.t01
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: LOC_Os07g14850.1 (Oryza sativa), 5'ss of exon 9
ACTGCTGGGAAAGAAAGTGTGCTATGTTCAGTTCCCACAGAGGTTTGATGGGATTGATAGGCATGATCGATATGCTAACCGGAACATTGTATTCTTTGATgtaagcctgcagttctccatatcttgatgcta-gttttgatagtttagagcttttctatcgattgacttggtcattttatatgcactag----
  || |||| ||||||||||||||||| |||||||| |||||||||||||| |||||  | |||||||||||||||||||||||| |||| || || ||||||||  |     ||||       || | ||| |   |  | || || |   |   | |   |    | | || |  ||| |||| |      
TTTGGTGGGGAAGAAAGTGTGCTATGTGCAGTTCCCTCAGAGGTTTGATGGTATTGACCGACATGATCGATATGCTAACCGGAACGTTGTCTTTTTCGATgtaagattcagcctctc-------tggtactaagaccttgtggtctatattatgcttgttactattatggttcctaatatttgcattgtacag

upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: LOC_Os07g24190.2 (Oryza sativa), 5'ss of exon 6
ACTGCTGGGAAAGAAAGTGTGCTATGTTCAGTTCCCACAGAGGTTTGATGGGATTGATAGGCATGATCGATATGCTAACCGGAACATTGTATTCTTTGATgtaagcctgcagttctccatatctt---gatgctagttttgatagtttaga-gcttttctatcgattgacttggtcattttatatgcactag
  || | |||||||| || || ||||| || ||||| || |||||||||||||||||| | ||||||||||| || ||| ||||| | || ||||| ||||||||  |    | | |||||| |    ||| ||    |  | |  |||     ||||||  |  || |  |      |||   ||    ||
TTTGGTTGGAAAGAAGGTTTGTTATGTGCAATTCCCTCAAAGGTTTGATGGGATTGATCGTCATGATCGATACGCCAACAGGAACGTGGTCTTCTTCGATgtaagatt----tgccccatatttctgagatactctcctacacaagttatttaattttcttgcagtttatctaaca--tttgcttgttacag

upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: LOC_Os03g62090.1 (Oryza sativa), 5'ss of exon 10
ACTGCTGGGAAAGAAAGTGTGCTATGTTCAGTTCCCACAGAGGTTTGATGGGATTGATAGGCATGATCGATATGCTAACCGGAACATTGTATTCTTTGATgtaagcctgcagttctccatatct-tgatgctagttttgata-gtttagagcttttctatcgattg--acttggtcattttatatgcactag--
  || | ||||||||||| || ||||| ||||||||||| || || ||||| |||||  | |||||||||||||||||  ||||  | || || || ||||||||  |    |   | |||| | |||| ||  |  |  |   | | ||||  |   |     ||    ||    ||| | |||    |    
CTTGGTAGGAAAGAAAGTTTGTTATGTGCAGTTCCCACAAAGATTCGATGGCATTGACCGTCATGATCGATATGCTAATAGGAATGTCGTCTTTTTCGATgtaagattt--atctccaatatttctgattctgttcatcgtgtatgttgagccatcaaacttgatgctgtttccctattatttatttcttgcag

upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G082580_T01 (Zea mays), 5'ss of exon 8
ACTGCTGGGAAAGAAAGTGTGCTATGTTCAGTTCCCACAGAGGTTTGATGGGATTGATAGGCATGATCGATATGCTAACCGGAACATTGTATTCTTTGATgtaagcctgcagttctccatatcttgatgctagttttgatagtttagagcttttctatcgattgacttggtcattttatatgcactag------
  || |||| ||||||||||||||||| |||||||| |||||||| ||||| |||||  | |||||||||||||||||| ||||| | || || |||||||||||  | ||| |  || | |    |        || |    || |   | || |     |    |  ||  | | | |    |  |      
TTTGGTGGGGAAGAAAGTGTGCTATGTACAGTTCCCTCAGAGGTTCGATGGTATTGACCGTCATGATCGATATGCTAACAGGAACGTCGTCTTTTTTGATgtaagatt-cagcttccc-tgttccaacaaacaccttaagctcttcgttttattgtccatgtcacatatgttttctaacacttgcatgatacag

upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G025231_T01 (Zea mays), 5'ss of exon 10
ACTGCTGGGAAAGAAAGTGTGCTATGTTCAGTTCCCACAGAGGTTTGATGGGATTGATAGGCATGATCGATATGCTAACCGGAACATTGTATTCTTTGATgtaagcctgcagttctccatatctt-gatgctagttttgatagtttagagcttttctatcgattgacttggtcat-tttatatgcactag
  | || |||||||| || |||||||| |||||||| || || ||||||||||||||| | ||||| |||||||||||||||||  |||| || |||||||||||  |     |    || |||  | || |   ||   ||   ||    ||   |   || ||  ||  | |  ||| | |     ||
TTTACTAGGAAAGAAGGTTTGCTATGTACAGTTCCCTCAAAGATTTGATGGGATTGATCGCCATGACCGATATGCTAACCGGAATGTTGTCTTTTTTGATgtaagatttagcattcatatttctgaggtgttctgttgtctataatatgtattccttggtgaatgttttactaacatttgtgttgtgcag

upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G177631_T01 (Zea mays), 5'ss of exon 8
ACTGCTGGGAAAGAAAGTGTGCTATGTTCAGTTCCCACAGAGGTTTGATGGGATTGATAGGCATGATCGATATGCTAACCGGAACATTGTATTCTTTGATgtaagcctgcagttctccatatcttgatgctagttttgatagtttagagcttttctatcgat-tgacttggtcattttatatgcactag---
  || |||| ||||||||||||||||| |||||||| |||||||||||||| ||||| |   |||||||||| |||||| ||||| |||| || ||||| |||||  |  | ||| |  | |    |  |     || |  | |      |||  | ||||| |  | |  |  |||| ||  |||  |   
TTTGGTGGGGAAGAAAGTGTGCTATGTACAGTTCCCTCAGAGGTTTGATGGTATTGACAAAAATGATCGATACGCTAACAGGAACGTTGTCTTTTTTGACgtaagattcaacttccc--tgttcgaacacacaccttaa--gctcttcattttattgtcgatgtctcatattttttttgta-acacctgcag

upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G028353_T02 (Zea mays), 5'ss of exon 10
ACTGCTGGGAAAGAAAGTGTGCTATGTTCAGTTCCCACAGAGGTTTGATGGGATTGATAGGCATGATCGATATGCTAACCGGAACATTGTATTCTTTGATgtaagcctgcagttctccatatctt-gatg--ctagttttgatagtttagagcttttctatcgattgacttggtcat-tttatatgcactag
||| || |||||||| || |||||||| |||||||| || || ||||||||||||||| | ||||| |||||||||||| ||||  |||| || || ||||||||  |  |  |    || |||  ||||  ||  | |  | | | |  |  |||  |   || ||  ||  | |  ||| |       ||
ACTACTAGGAAAGAAGGTTTGCTATGTACAGTTCCCTCAAAGATTTGATGGGATTGATCGCCATGACCGATATGCTAACAGGAATGTTGTCTTTTTCGATgtaagatttgacattcatatttctgagatgttctgttgtctacattatgtatttttcttggtgaatgttttactaacatttgtgctgtgcag

upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G113137_T01 (Zea mays), 5'ss of exon 10
ACTGCTGGGAAAGAAAGTGTGCTATGTTCAGTTCCCACAGAGGTTTGATGGGATTGATAGGCATGATCGATATGCTAACCGGAACATTGTATTCTTTGATgtaagcctgcagttctccatatctt---gatgctagttttgatagtttagagctttt--ctatcgat--tgacttggtcattttatatgcac-tag
  |||| ||||| ||||| |||||||| ||||| || || || ||||||||||||||| | |||||||||||||||||| | ||  |||| || || ||||||||    | ||  || | || |    || | |   ||   ||   |    | ||   ||  | ||  ||  |   | || ||| || ||   ||
TTTGCTTGGAAATAAAGTTTGCTATGTGCAGTTTCCTCAAAGATTTGATGGGATTGATCGCCATGATCGATATGCTAACAGAAATGTTGTCTTTTTCGATgtaagat--ctgtcatcaaaatttctaagaagttcccttgtctaacatgatacattgaacttacaatgctgtttccctaatgttacattcatacag

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|161708357|gb|FC055293.1|FC055293
EST:     GGATTGATAGGCATGATCGATATGCTAACCGGAACATTGTATTCTTTGAT                         ATCAACATGAAAGGCTTGGACGGA
genomic: GGATTGATAGGCATGATCGATATGCTAACCGGAACATTGTATTCTTTGATgtaagcctgc ... tatgcactagATCAACATGAAAGGCTTGGACGGA
EST: gi|294965928|gb|GW839267.1|GW839267
EST:     GGATTGATAGGCATGATCGATATGCTAACCGGAACATTGTATTCTTTGAT                         ATCAACATGAAAGGCTTGGACGGAATTCAAGGACCCATTTATGTGGGTACT
genomic: GGATTGATAGGCATGATCGATATGCTAACCGGAACATTGTATTCTTTGATgtaagcctgc ... tatgcactagATCAACATGAAAGGCTTGGACGGAATTCAAGGACCCATTTATGTGGGTACT