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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCTTTGAGATGGGTCTCGAGCTTTCACTTGCTCGTCTGAAAGCTCTTGCAAAATTTGCTTTTGGCATGGGACTAACTCAGgtttggttctaaaagatgtttcttggtttgctttaaactccttacattccttcttatattttcacttctgtcagataagcatctcaagagtcatcagtga...

Basic information

species Arabidopsis thaliana
transcript AT4G04850.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G04850.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA08G06890.1 (Glycine max), 5'ss of exon 4
CTCTTTGAGATGGGTCTCGAGCTTTCACTTGCTCGTCTGAAAGCTCTTGCAAAATTTGCTTTTGGCATGGGACTAACTCAGgtttggttctaaaag-atgtttcttggtttgctt--taaactccttacattccttcttatatttt-cacttctgtcagat--aagcatctcaagagtcatcagtga
|| |||||||||||| | ||||||||||||||||||||||||||||||||||||| ||||||||| |||||| | |||||||| ||   ||    |  || |  | | | |||     ||| | ||||      ||| |  |||||   | |  || || |  |   ||   ||   | ||      
CTGTTTGAGATGGGTTTAGAGCTTTCACTTGCTCGTCTGAAAGCTCTTGCAAAATATGCTTTTGGGATGGGATTGACTCAGgtatgacactttgggtgtgataatggttgtgcaaagaaaatttcttaggccatttcattcattttattcattggttagcttcatctatgctaaagattat------

upper sequence: AT4G04850.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA07G30360.2 (Glycine max), 5'ss of exon 5
CTCTTTGAGATGGGTCTCGAGCTTTCACTTGCTCGTCTGAAAGCTCTTGCAAAATTTGCTTTTGGCATGGGACTAACTCAGgtttggttc--taaaagatgtttcttggtttgctttaaactccttacattc---cttcttatattttcacttctgtcagataagcatctcaagagtcatcagtga
|| |||||||||||| | |||||||||||||| |||||||||||||||||||||| ||||||||| |||||| |  ||||||| || |    |||  |   |     |      | | || || || | |||    |  | ||  |||  ||||    |  | |     |  | | | |||     
CTGTTTGAGATGGGTTTAGAGCTTTCACTTGCACGTCTGAAAGCTCTTGCAAAATATGCTTTTGGGATGGGATTGGCTCAGgtatgatgtgataatgggcatgcaaagaaaatttcttaagtcatttctttcacattattcatcatttagcttcatctatgttaaagattttaaatttatc-----

upper sequence: AT4G04850.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv00s0282g00020.t01 (Vitis vinifera), 5'ss of exon 4
CTCTTTGAGATGGGTCTCGAGCTTTCACTTGCTCGTCTGAAAGCTCTTGCAAAATTTGCTTTTGGCATGGGACTAACTCAGgtttggttctaa--aagatgtttcttggtttgctt-taaactccttacattccttcttatattttcacttctgtcagataagcatctcaagagtcatcagtga
|| |||||||||||| | |||||||||||||| |||||  | |||||||||||||||||||||||||||||| | ||||||||  | |  | |  || ||     |    ||| |  |  | ||  ||  |       ||| |   || |    | | || |     |||    ||| || |  
CTGTTTGAGATGGGTTTAGAGCTTTCACTTGCACGTCTACAGGCTCTTGCAAAATTTGCTTTTGGCATGGGATTGACTCAGgtaagatgttgataaaaataaagttaaaattgttcattgagtcagtaggtgtgcagatatgtggccaat--aattatatgatatattcatctttcaacattt-

upper sequence: AT4G04850.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S114_83V6.1 (Physcomitrella patens), 5'ss of exon 3
CTCTTTGAGATGGGTCTCGAGCTTTCACTTGCTCGTCTGAAAGCTCTTGCAAAATTTGCTTTTGGCATGGGACTAACTCAGgtttggttctaaaagatgttt--cttggtt--tgctttaaac------tccttacattccttcttatattttcacttctgtcagataagcatc-tcaagag-----tcatcagtga-------------------
|| ||||||||||| || ||||||||  | || ||||| |||||||| || ||||||||||||||||| |||||  | ||||| |  |  | | | | ||     ||  ||  || ||||||       |    || | |  | ||  | ||  | ||   |||||  | |  | |||||||      | |||   |                   
CTGTTTGAGATGGGACTGGAGCTTTCTTTAGCGCGTCTTAAAGCTCTGGCGAAATTTGCTTTTGGCATAGGACTTGCCCAGgtatattcttcacacaagtaggatttaattgctgatttaaaaggacggtgtgcacgtcctctgttccacttgaagttacttcagaagatctgcatcaagagaagccccttcaccaacttgtaatttttcctgcag

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|125298271|gb|EL312356.1|EL312356
EST:     TTTGCTTTTGGCATGGGACTAACTCAG                         GTTTTGTTATGCACGGCTGCATTCACTGCTTTTGAACTCCCACCAAATGGA
genomic: TTTGCTTTTGGCATGGGACTAACTCAGgtttggttct ... tggttcaaagGTTTTGTTATGCACGGCTGCATTCACTGCTTTTGAACTCCCACCAAATGGA