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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcttttatgtccttttttaattttcaagcaactggaactctcgaactacttgctgatatcttaactgtcttgtgtagGATTCCTTGGGTCGATGGTATTGCTGCAATGATTCGTTTGTCTCGCTCTCCACCTTGCAGGAGGTTTTATCAGAGAAAGCTTATATCCTGTTTTTCAGCC

Basic information

species Arabidopsis thaliana
transcript AT3G14400.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G14400.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv19s0093g00560.t01 (Vitis vinifera), 3'ss of exon 5
-------------------------------gttcttttatgtccttttttaattt--tcaagcaactggaactctcgaactacttgctgatatct-----taactgtct-tgtgtagGATTCCTTGGGTCGATGGTATTGCTGCAATGATTCGTTTGTCTCGCTCTCCACCTTGCAGGAGGTTTTATCAGAGAAAGCTTATATCCTGTTTTTCAGCC
                                 ||||   | |  |  |    |||    ||||| ||    |  |     |  |  ||||| | |      |  | | | ||| |||||| |  ||||||| |||||||||||||| ||||| | ||| || || || ||| |||||| |||||| |||||||| | ||| || || || ||    |
gtatctcttcacctgtcctgttctattctctactcttgcttttggtactcaggtttgacaaagcagctttgtcctttttttt-ttccctgatttttggttgcacttatgtgtgtatagGATGCAATGGGTCGCTGGTATTGCTGCAACGATTCTTATGTTTCACTTTCAACCCTGCAGGGGGTTTTGTCAGAGAAGGTTTACATTCTTTTCTTTTCTC
















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|125173959|gb|EL195166.1|EL195166
EST:     ATTTTCTCCTGAATCTGGGCACTATTATGCATACGTTAAG                         GATTCCTTGGGTCGATGGTATTGCTGCAATGATTCGTTTGTCTCGCTCTCC
genomic: ATTTTCTCCTGAATCTGGGCACTATTATGCATACGTTAAGgttcttttat ... tcttgtgtagGATTCCTTGGGTCGATGGTATTGCTGCAATGATTCGTTTGTCTCGCTCTCC
EST: gi|125114942|gb|EL165145.1|EL165145
EST:     CACTATTATGCATACGTTAAG                         GATTCCTTGGGTCGATGGTATTGCTGCAATGATTCGTTTGTCTCGCTCTCC
genomic: CACTATTATGCATACGTTAAGgttcttttat ... tcttgtgtagGATTCCTTGGGTCGATGGTATTGCTGCAATGATTCGTTTGTCTCGCTCTCC
EST: gi|164095610|gb|ES023180.1|ES023180
EST:     CCTGAATCTGGGCACTATTATGCATACGTTAAG                         GATTCCTTGGGTCGATGGTATTGCTGCAATGATTCGTTTGTCTCGCTCTCC
genomic: CCTGAATCTGGGCACTATTATGCATACGTTAAGgttcttttat ... tcttgtgtagGATTCCTTGGGTCGATGGTATTGCTGCAATGATTCGTTTGTCTCGCTCTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcaagcaactggaactctcgaactacttgctgatatcttaactgtcttgtgtagGATTCCTTGGGTCGATGGTATTGCTGCAATGATTCGTTTGTCTCGCTCTCCACCTTGCAGGAGGTTTTATCAGAGAAAGCTTATATCCTGTTTTTCAGCC
                                    tcttaac  putative branch site (score: 2)
                                          ctgtctt  CT-rich tract
                                 atatcttaa  TA-rich tract