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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCATGCCTCTGTTCAGCTCAACATTGGTCATTTAGATGCTAATGGCTTGTACACCGGACAGTTCACAACCTTTGCTCTCTGCGGTTTTGTCCGTGCTCAGgtttgtaacaatttctcaatgctttgtccataattgagtcagaagagagttgatttgttttgtgtgtatcataagaagagttgaacaaccaaccctttgaatttctacttatcttcataggttaattaactattgatgtacacgattgcag

Basic information

species Arabidopsis thaliana
transcript AT5G27700.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G27700.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G134109_T01 (Zea mays), 5'ss of exon 3
TCATGCCTCTGTTCAGCTCAACATTGGTCATTTAGATGCTAATGGCTTGTACACCGGACAGTTCACAACCTTTGCTCTCTGCGGTTTTGTCCGTGCTCAGgtttgtaacaatttctcaatgctttgtccataattgagtcagaagagagttgatttgttttgtgtgtatcataagaagagttgaacaaccaaccctttgaatttctacttatcttcataggttaattaactattgatgtacacgattgcag
|||||||||||| ||| |||||||||| || || ||||| |||||| |||||   || || ||||| || ||||||||||  || |||||||||||||||||     | | |  |   |||   || | | |    | |    |  |   |    |||||  || || ||| | |      |   || |  || |  |||||  ||   |                                         
TCATGCCTCTGTCCAGATCAACATTGGCCACTTGGATGCGAATGGCCTGTACGATGGTCACTTCACCACGTTTGCTCTCTCTGGGTTTGTCCGTGCTCAGgt----gatagtc-caggatgtgatgcctacatgcaactttctactgcaattccgtgtttattgagt-tcacatg------ttggcacctgacacagtgaatgactgaatgg---------------------------------------

upper sequence: AT5G27700.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G093574_T01 (Zea mays), 5'ss of exon 3
TCATGCCTCTGTTCAGCTCAACATTGGTCATTTAGATGCTAATGGCTTGTACACCGGACAGTTCACAACCTTTGCTCTCTGCGGTTTTGTCCGTGCTCAGgtttgtaacaatttctca-atgctttgtccata-attgagtcagaagagagttgatttgttttgtgtgtatcataagaagagttgaacaaccaaccctttgaatttctacttatcttcataggttaattaactattgatgtacacgattgcag
 ||||||||||| ||| |||||||||| || || ||||| |||||| ||||    || || |||||||| ||||||||||  || |||||||||||||||||     | | ||  | | ||| ||  | |||   |  || |   | ||  |  |  |    |||       | | || |  ||  ||   |     ||    |                                                 
CCATGCCTCTGTCCAGATCAACATTGGCCACTTGGATGCGAATGGCCTGTATGATGGTCACTTCACAACGTTTGCTCTCTCTGGGTTTGTCCGTGCTCAGgt----gatagttcatgatatgtttattgcatttgtctagcccataaagtttaaagcttgagtgtaaagcctacatgaggctttttactgtctgtgtttcctgt-------------------------------------------------

upper sequence: AT5G27700.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G125300_T02 (Zea mays), 5'ss of exon 3
TCATGCCTCTGTTCAGCTCAACATTGGTCATTTAGATGCTAATGGCTTGTACACCGGACAGTTCACAACCTTTGCTCTCTGCGGTTTTGTCCGTGCTCAGgtttgtaacaatttctca-atgctttgtccataattgagtcagaagagagttgatttgttttgtgtgtatcataagaagagttgaacaaccaaccctttgaatttctacttatcttcataggttaattaactattgatgtacacgattgcag
 ||||||||||| ||| |||||||||| || || ||||| |||||| ||||    || || |||||||| ||||||||||  || |||||||||||||||||     ||| ||  | | ||| ||  | |||   |    |  |  | | || |      ||| |||||    |||   |  |||         | ||| | | ||||  | | | |                                   
CCATGCCTCTGTCCAGATCAACATTGGCCACTTGGATGCGAATGGCCTGTATGATGGTCACTTCACAACGTTTGCTCTCTCTGGGTTTGTCCGTGCTCAGgt----gacagttcatgatatgtttattgcatttgtctagcccataaaatttaa---agcttgagtgta----aagcctacatgagg-------ctttttactgtctatgtgtttcct----------------------------------

upper sequence: AT5G27700.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv14s0060g02110.t01 (Vitis vinifera), 5'ss of exon 3
TCATGCCTCTGTTCAGCTCAACATTGGTCATTTAGATGCTAATGGCTTGTACACCGGACAGTTCACAACCTTTGCTCTCTGCGGTTTTGTCCGTGCTCAGgtttgtaacaatttctcaatgctttgtccataattgagtcagaagagagttgatttgttttgtgtgtatcataagaagagttgaacaaccaaccctttgaatttctacttatcttcataggttaattaactattgatgtacacgattgcag
|||||| || || ||| | |||||||| ||||||||||  | |||    |||||||| || || || ||||||||||| ||||| |||||||| |||||||||       |||| ||  |   || ||   | || |   |  |      | | |  | ||||  |  | ||   |||  ||  |   |      ||   |  | ||    | ||  ||                                
TCATGCATCAGTCCAGATTAACATTGGGCATTTAGATGAGAGTGGAACTTACACCGGTCAATTTACTACCTTTGCTCTTTGCGGCTTTGTCCGGGCTCAGgtt-------atttttc--tttcttatcttcatttcaagtatta------ttactgatattgttag--ttatttaaaggttt--atggcttgtttttcataagtttagcccttttgtta--------------------------------

upper sequence: AT5G27700.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S306_29V6.1 (Physcomitrella patens), 5'ss of exon 2
TCATGCCTCTGTTCAGCTCAACATTGGTCATTTAGATGCTAATGGCTTGTACACCGGACAGTTCACAACCTTTGCTCTCTGCGGTTTTGTCCGTGCTCAGgtttgtaacaatttctcaatgctttgtccataattgagtcagaagagagttgatttgttttgtgtgtatcataagaagagttgaacaaccaaccctttgaatttctacttatcttcataggttaattaactattgatgtacacgattgcag
|   || || |||||||| ||  | |||||  | || |  || ||| |||| ||||| |||||||| || |||||  | ||||| || |||||||||||||||||| |||||| ||   |  || |      |||   ||          ||||  | ||| |||   || |     |  ||   |    |    | | ||     |  ||||                                      
TGTCGCTTCAGTTCAGCTGAATGTGGGTCACGTTGACGAGAACGGCGTGTATACCGGCCAGTTCACCACTTTTGCCTTGTGCGGCTTCGTCCGTGCTCAGgtttgtgacaattcctt--tttttagcttgacattctctc--------tctgatcggctttatgtcgttcttgtattggctttgtcgcgga----tattaagcataatgtatcg-------------------------------------

upper sequence: AT5G27700.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S372_10V6.1 (Physcomitrella patens), 5'ss of exon 2
TCATGCCTCTGTTCAGCTCAACATTGGTCATTTAGATGCTAATGGCTTGTACACCGGACAGTTCACAACCTTTGCTCTCTGCGGTTTTGTCCGTGCTCAGgtttgtaacaatttctcaatgctttgtccataattgagtcagaagagagttgatttgttttgtgtgtatcataagaagagttgaacaaccaaccctttgaatttctacttatcttcataggttaattaactattgatgtacacgattgcag
|  |||||| |||||||||||  | |||||| | || |  |||||  | |||||||| |||||||| ||||| || || ||||| ||||| |||||||||||  |||    |||     || |||      | |  | |   ||        | ||||    |   | |  | |  |   | ||  | |   |  |||  |  | |                                             
TGTTGCCTCAGTTCAGCTCAATGTGGGTCATGTTGACGAAAATGGTGTCTACACCGGGCAGTTCACCACCTTCGCCCTATGCGGGTTTGTTCGTGCTCAGgtgggtatacgttt-----tgattt---tgcagtcaatttttaacgcgtcccacttgtagacttcatgttgtgacgatgttagaggatctgtctttttttaaatgtgt-------------------------------------------

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|164042349|gb|ES079101.1|ES079101
EST:     ACACCGGACAGTTCACAACCTTTGCTCTCTGCGGTTTTGTCCGTGCTCAG                         GGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCAGAAGAAGAAGGTTGAA
genomic: ACACCGGACAGTTCACAACCTTTGCTCTCTGCGGTTTTGTCCGTGCTCAGgtttgtaaca ... acgattgcagGGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCAGAAGAAGAAGGTTGAA
EST: gi|125193143|gb|EL208097.1|EL208097
EST:     GCGGTTTTGTCCGTGCTCAG                         GGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCAGAAGAAGAAGGTTGAA
genomic: GCGGTTTTGTCCGTGCTCAGgtttgtaaca ... acgattgcagGGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCAGAAGAAGAAGGTTGAA
EST: gi|125019277|gb|EL091546.1|EL091546
EST:     CACCGGACAGTTCACAACCTTTGCTCTCTGCGGTTTTGTCCGTGCTCAG                         GGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCAGAAGAAGAAGGTTGAA
genomic: CACCGGACAGTTCACAACCTTTGCTCTCTGCGGTTTTGTCCGTGCTCAGgtttgtaaca ... acgattgcagGGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCAGAAGAAGAAGGTTGAA
EST: gi|164117972|gb|ES141297.1|ES141297
EST:     TGCGGTTTTGTCCGTGCTCAG                         GGAGACGCGTGACAGTGGTGTCGACAGGTTTGTGGCAGAAGAAGAAGGTTG
genomic: TGCGGTTTTGTCCGTGCTCAGgtttgtaaca ... acgattgcagGGAGACGC-TGACAGTGGTGTCGACAGG-TTGTGGCAGAAGAAGAAGGTTG
EST: gi|164058103|gb|ES003696.1|ES003696
EST:     CTTTGCTCTCTGCGGTTTTGTCCGTGCTCAG                         GGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCAGAAGAAGAAGGTTGAA
genomic: CTTTGCTCTCTGCGGTTTTGTCCGTGCTCAGgtttgtaaca ... acgattgcagGGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCAGAAGAAGAAGGTTGAA
EST: gi|164224419|gb|EL985050.1|EL985050
EST:     ACACTGGACAGTTCACAACCTTTGCTCTCTGCGGTTTTGTCCGTGCTCAG                         GGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCA
genomic: ACACCGGACAGTTCACAACCTTTGCTCTCTGCGGTTTTGTCCGTGCTCAGgtttgtaaca ... acgattgcagGGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCA
EST: gi|164075679|gb|ES074435.1|ES074435
EST:     ACACCGGACAGTTCACAACCTTTGCTCTCTGCGGTTTTGTCCGTGCTCAG                         GGAGACGCTGACAGTGGTGTCGA
genomic: ACACCGGACAGTTCACAACCTTTGCTCTCTGCGGTTTTGTCCGTGCTCAGgtttgtaaca ... acgattgcagGGAGACGCTGACAGTGGTGTCGA
EST: gi|164207808|gb|ES029087.1|ES029087
EST:     CTCTCTGCGGTTTTG-CCGTGCTCAG                         GGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCAGAAGAAGAAGGTTGAA
genomic: CTCTCTGCGGTTTTGTCCGTGCTCAGgtttgtaaca ... acgattgcagGGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCAGAAGAAGAAGGTTGAA
EST: gi|164045278|gb|ES195909.1|ES195909
EST:     ACACCGGACAGTTCACAACCTTTGCTCTCTGCGGTTT-GTCCGTGCTCAG                         GGAGACGCTGACAGTGGTG
genomic: ACACCGGACAGTTCACAACCTTTGCTCTCTGCGGTTTTGTCCGTGCTCAGgtttgtaaca ... acgattgcagGGAGACGCTGACAGTGGTG
EST: gi|163991824|gb|ES087501.1|ES087501
EST:     ACAGTTCACAACCTTTGCTCTCTGCGGTTTTGTCCGTGCTCAG                         GGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCAGAAGAAGAAGGTTGAA
genomic: ACAGTTCACAACCTTTGCTCTCTGCGGTTTTGTCCGTGCTCAGgtttgtaaca ... acgattgcagGGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCAGAAGAAGAAGGTTGAA
EST: gi|163967277|gb|ES028452.1|ES028452
EST:     TCACAACCTTTGCTCTCTGCGGTTTTGTCCGTGCTCAG                         GGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCAGAAGAAGAAGGTTGAA
genomic: TCACAACCTTTGCTCTCTGCGGTTTTGTCCGTGCTCAGgtttgtaaca ... acgattgcagGGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCAGAAGAAGAAGGTTGAA
EST: gi|125089682|gb|EL147958.1|EL147958
EST:     GGTTTTGTCCGTGCTCAG                         GGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCAGAAGAAGAAGGTTGAA
genomic: GGTTTTGTCCGTGCTCAGgtttgtaaca ... acgattgcagGGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCAGAAGAAGAAGGTTGAA
EST: gi|164078354|gb|ES098790.1|ES098790
EST:     CTCTCTGCGGTTTTGTCCGTGCTCAG                         GGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCAGAAGAAGAAGGTTGAA
genomic: CTCTCTGCGGTTTTGTCCGTGCTCAGgtttgtaaca ... acgattgcagGGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCAGAAGAAGAAGGTTGAA