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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAAgtaatcctgatgttatcttgtctaacttacgctttatgtgtgatttaagacatcaaagatgaggttctcatgttcttttgtgctgtcttctatgattttag

Basic information

species Vitis vinifera
transcript Vv18s0076g00260.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0076g00260.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G046846_T01 (Zea mays), 5'ss of exon 4
GGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAAgtaatcctgatgtt-atcttgtctaacttacgctttatgtgtgatttaagacatcaaagatgaggttctcatgttcttttgtgctgtcttctatgattttag
||||||  ||||| | || |||  |||||| || || ||||| ||||| || || |||||||||||||||||||||||||| |||||||| ||||||   | |  || | |   |  ||| ||      |       |||| |  || ||| || |    |||| |  ||||| |||  ||    |   ||| ||
GGAAGAGTTGAAAGTGTTCTCTACAGAAGTTGTTCGCTTTGGAAATCGTTGCAAGGATCCTCAGTGGCACAACTTGGACCGCTACTTTGATAAgtaaaattcactttgagcccttgcaacctatagag-acaaagattttagggtattaaaaattaa---ctca-gcgcttttatgccatcaa--actctttcag

upper sequence: Vv18s0076g00260.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G077621_T01 (Zea mays), 5'ss of exon 3
GGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAAgtaatcctgatgttatcttgtctaacttacgctttatgtgtgatttaagacatcaaagatgaggttctcatgttcttttgtgctgtcttctatgattttag
||||||  |  || | ||  |   ||| ||  | || ||||| || || || || |||||||||||||| ||||||||||| |||||||| |||||    |  | || |||      || |  | ||| |||  |        | |  |   |  | | || |  || |||     ||| ||| || |      
GGAAGAGTTAGAAGTATTCACAAAAGAGGTCATTCGCTTTGGAAACCGTTGCAAGGATCCTCAGTGGCATAACTTGGACCGCTACTTTGAAAAgta----tagttttttctcagt--acctgag-tttgtgtacg--------cgtttactttaggctactaactttatttctgtttgtattccattag-----

upper sequence: Vv18s0076g00260.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G320615_T01 (Zea mays), 5'ss of exon 3
GGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAAgtaatcctgatgttatcttgtctaacttacgctttatgtgtgatttaagacatcaaagatgaggttctcatgttcttttgtgctgtcttctatgattttag
|||| |  |  || | ||| |   ||| ||  | || ||||| ||||| || || |||||||||||||| ||||||||| | |||||||| |||||    |  | |     |  || | ||        ||| |  |||| |  |  |||             | || || |||  ||| ||| || |      
GGAAAAGTTAGAAGTATTTACAAAAGAGGTCATTCGCTTTGGAAATCGTTGCAAGGATCCTCAGTGGCATAACTTGGACTGCTACTTTGAAAAgtatagtttttttctcagtacctgagtttgtggacgtgtttactttaggctactaaa-------------tttttttctgt-ttgtattccattag-----

upper sequence: Vv18s0076g00260.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G148773_T03 (Zea mays), 5'ss of exon 3
GGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAAgtaatcctgatgttat-cttgtctaacttacgctttatgtgtgatttaagacatcaaagatgaggttctcatgttcttttgtgctgtcttctatgattttag
||||||  ||||| | ||||||  |||||| || || ||||| ||| | || || ||||||||||||||||| ||| |||| |||||||| ||||||   | |  ||   |   |  | | ||            | |||| |  ||  || || |    |||| |  ||||| |||  ||    |   ||| ||
GGAAGAGTTGAAAGTGTTTTCTACAGAAGTTGTTCGCTTTGGAAATTGTTGCAAGGATCCTCAGTGGCACAATTTGAACCGCTACTTTGATAAgtaaagttcactttggacccctgcagcctatagag-gcaaaggttttagggtattgaaaattaa---ctcaggcgcttttatgccatcaa--actctttcag

upper sequence: Vv18s0076g00260.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G097502_T02 (Zea mays), 5'ss of exon 3
GGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAAgtaatcctgatgttatct-tgtctaacttacgctttatgtgtgatttaagacatcaaagatgaggttctcatgttcttttgtgctgtcttctatgattttag
||||||  |  || | ||  |  |||| || || || ||||| || || || || |||||||| ||||| ||||||||||| |||||||| |||||    |  | || ||  |   | | ||      | ||| |  |||| |  |  ||         | ||||    |||||| |||  ||| || |      
GGAAGAGTTAGAAGTATTCACAAGAGAGGTTGTTCGCTTTGGAAACCGTTGCAAGGATCCTCAATGGCATAACTTGGACCGCTACTTTGAAAAgtacagtttttcttctcagtacttgaatttgagaatgtgtttactttaggttactaa--------ctttcat----ttttgt-ctggattccattag-----

upper sequence: Vv18s0076g00260.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA10G36210.1 (Glycine max), 5'ss of exon 6
GGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAAgtaatcctgatgttatcttgtctaacttacgctttatgtg--tgatttaagacatcaaagatgaggttctcatgttcttttgtgctgtcttctatgattttag--------------------------------
 |||||| ||||||| |||||||| ||||| || |||||||| ||||| |||||||||||||| ||||||||| |||| || || |||||||||||||  |  |   ||    |  | |||    ||| |     |  | ||   ||    |  |    || | || || | ||||    |||   ||  | ||||                                
AGAAGAATTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAAgtaattgtagttgaattgatttaatcttgtattttttagaactagtctagatcagttgatctttccttat-attttttcttgtaacatctaacattgtgttagttatggttttctttgtctttgttgatgtttag

upper sequence: Vv18s0076g00260.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA20G31400.1 (Glycine max), 5'ss of exon 6
GGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAAgtaatcctgatgttatcttgtctaacttacgctttatgtgtgatttaagacatcaaagatgaggt--tctcatgttcttttgtgctgt--cttctatgattttag-------------------------------
 |||||  ||||||| |||||||| ||||| || |||||||| ||||| |||||||||||||| ||||||||| |||| || || |||||||||||||  |  | | | ||| | |||  |  |  || | |  ||| |||   |   ||  |||  |  ||| |  || | || |  |||  | ||||   | ||||                               
AGAAGAGTTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAAgtaattgtagt-tgaacttat-taatctttgtatttttttagatctaatctagttaaattgatttaatcttaccttatattttcttgtaacatctaacgtgttagttatttattttttttctttgttgatgtttag

upper sequence: Vv18s0076g00260.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT1G34320.1 (Arabidopsis thaliana), 5'ss of exon 4
GGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAAgtaatcctgatgttatcttgtctaacttacgctttatgtgtgatttaagacatcaaagatgaggttctcatgttcttttgtgctgtcttctatgattttag
||||||  |||  |||||||||||||| ||||| |||||||||||||| || || |||||||| |  |||||| |||| |||| |||||| | ||    |  |  | ||| ||||    |   | |        |  |  |  | |    ||     |     | ||| || || |||| ||  |||||||   
GGAAGAGTTGAGGATTTTTTCTGGAGAGGTGGTGCGTTTTGGGAATCGTTGCAAGGATCCTCAATACCACAACCTGGATCGTTTCTTTGACAGgt---tccaacatgatcctgtcactttggtggtcacacaacgggtgtattccttttggaaagtatctgacttttcattagttctgtgtt--atgatttag-

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|352781806|gb|FQ469104.1|FQ469104
EST:     AATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAA                         GTTGGGTTCAGAGCTCACACCACAGAAGCAATTGAAAGAAGAAGCAGATAC
genomic: AATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAAgtaatcctga ... atgattttagGTTGGGTTCAGAGCTCACACCACAGAAGCAATTGAAAGAAGAAGCAGATAC
EST: gi|71887997|gb|DT037052.1|DT037052
EST:     AATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAA                         GTTGGGTTCAGAGCTCACACCACAGAAGCAATTGAAAGAAGAAGCAGATAC
genomic: AATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAAgtaatcctga ... atgattttagGTTGGGTTCAGAGCTCACACCACAGAAGCAATTGAAAGAAGAAGCAGATAC
EST: gi|352778150|gb|FQ468812.1|FQ468812
EST:     AATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAA                         GTTGGGTTCAGAGCTCACACCACAGAAGCAATTGAAAGAAGAAGCAGATAC
genomic: AATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAAgtaatcctga ... atgattttagGTTGGGTTCAGAGCTCACACCACAGAAGCAATTGAAAGAAGAAGCAGATAC