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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaactggttgatgttgtgactaattatgaattgtgttataagttttgacacagtgccatgttttgtgaagatcattgtttgactgatacaaggcttgtttgtggttctcagGCATGTGTCAAGAGAATCCAAGGTGATGATTCTGGCCACAAGCATTGCACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGT

Basic information

species Arabidopsis thaliana
transcript AT1G15120.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G15120.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: PP1S491_11V6.1 (Physcomitrella patens), 3'ss of exon 2
gtgaaactggttgatgttgtgactaattatgaattgtgttataagttttgacacagtgccatgttttgtgaagatcattgtttgactgatacaaggcttgtt-tgtggt-tctcagGCATGTGTCAAGAGAATCCAAGGTGATGATTCTGGCCACAAGCATTGCACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGT
             || |   ||  ||| | |       | ||    ||  ||    || |  |   |  || |||| |   |    |  |  |  | | | | ||  || |  |||||||| || ||| | ||  | |  |||||   ||| || ||||||||||||||||||||||| ||||| |||   ||||||||  |||||
-------------at-tcaggagcaataaggtgaatcctcatggaattgcac-tgatgacgagcaat-cgacgatcgtcagtatgttagtgtattgatggatatgctgtatgacagGCATGCGTGAAGCGCATTGAGGAGGATGAGAATGGTCAAAAGCATTGCACTGGCCAGTATTTCGACTATTGGGGCTGCATTGATCAATGT
















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|124796736|gb|EH886415.1|EH886415
EST:     TTGAGGAATCTTGCAAACCAAAATGTGTGAAGCCACTTCTCGAATATCAG                         GCATGTGTCAAGAGAATCCAAGGTGATGATTCTGGCCA
genomic: TTGAGGAATCTTGCAAACCAAAATGTGTGAAGCCACTTCTCGAATATCAGgtgaaactgg ... tggttctcagGCATGTGTCAAGAGAATCCAAGGTGATGATTCTGGCCA
EST: gi|164080371|gb|ES075323.1|ES075323
EST:     TTGAGGAATCTTGCAAACCAAAATGTGTGAAGCCACTTCTCGAATATCAG                         GCATGTGTCAAGAGAATCCAAAGTGATGAT
genomic: TTGAGGAATCTTGCAAACCAAAATGTGTGAAGCCACTTCTCGAATATCAGgtgaaactgg ... tggttctcagGCATGTGTCAAGAGAATCCAAGGTGATGAT
EST: gi|164216671|gb|ES089623.1|ES089623
EST:     TTGAGGAATCTTGCAAACCAAAATGTGTGAAGCCACTTCTCGAATATCAG                         GCATGTGTCAAGAGAATCCAAAGTGATGATT
genomic: TTGAGGAATCTTGCAAACCAAAATGTGTGAAGCCACTTCTCGAATATCAGgtgaaactgg ... tggttctcagGCATGTGTCAAGAGAATCCAAGGTGATGATT
EST: gi|124923746|gb|EL001905.1|EL001905
EST:     ATGTGTGAAGCCACTTCTCGAATATCAG                         GCATGTGTCAAGAGAATCCAAGGTGATGATTCTGGCCACAAGCATTGCACT
genomic: ATGTGTGAAGCCACTTCTCGAATATCAGgtgaaactgg ... tggttctcagGCATGTGTCAAGAGAATCCAAGGTGATGATTCTGGCCACAAGCATTGCACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgttttgtgaagatcattgtttgactgatacaaggcttgtttgtggttctcagGCATGTGTCAAGAGAATCCAAGGTGATGATTCTGGCCACAAGCATTGCACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGT
                        gactgat  putative branch site (score: 3)
                                                ttctc  putative PPT
                 attgttt  TA-rich tract