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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttactacttcttccttttttccagcatatactggaaaagtttcgtataagttctaactccaaaccacaaaatcatcttgcagCTTTTCTTACTCCGAGCTGCCAGTTTTCTTCTTCCTTGCTACATCATGGCATCAGCCATCAGTATCCTGCATCGCCGTAGACAGAGACAGGAAGCAGCGG

Basic information

species Arabidopsis thaliana
transcript AT1G14260.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G14260.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA07G35750.2 (Glycine max), 3'ss of exon 5
gtaagttactacttcttccttttttccag-----catatactgg----aaaagtttcgtataagttctaactccaa----accacaaaatcatctt--gcagCTTTTCTTACTCCGAGCTGCCAGTTTTCTTCTTCCTTGCTACATCATGGCATCAGCCATCAGTATCCTGCATCGCCGTAGACAGAGACAGGAAGCAGCGG
|| ||| |||     |   |       ||     |||||| | |    |    ||||  |||  |  |    | ||    | ||||    |||  |  |||||||||||| || ||||||||  |||||||| | |||||||| |||||||| |  || ||||||||  |||| |||||  |||| |||||           
gtgagtgactttagttcattagggataagtggttcatatagtagttgtattgctttcaaatacatcattgggctaacctcatcacatggccattctctgcagCTTTTCTTGCTTCGAGCTGCTGGTTTTCTTTTACCTTGCTATATCATGGCTTGGGCAATCAGTATTTTGCAACGCCGGCGACAAAGACAA----------
















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|164146866|gb|ES090968.1|ES090968
EST:     CTTCAATACTTTCT                         CTTTTCTTACTCCGAGCTGCCAGTTTTCTTCTTCCTTGCTACATCATGGCA
genomic: CTTCAATACTTTCTgtaagttact ... catcttgcagCTTTTCTTACTCCGAGCTGCCAGTTTTCTTCTTCCTTGCTACATCATGGCA
EST: gi|164016377|gb|EL995322.1|EL995322
EST:     CTTCAATACTTTCT                         CTTTTCTTACTCCGAGCTGCCAG-TTTCTTCTTCCTTGCTACATCATGGCA
genomic: CTTCAATACTTTCTgtaagttact ... catcttgcagCTTTTCTTACTCCGAGCTGCCAGTTTTCTTCTTCCTTGCTACATCATGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atactggaaaagtttcgtataagttctaactccaaaccacaaaatcatcttgcagCTTTTCTTACTCCGAGCTGCCAGTTTTCTTCTTCCTTGCTACATCATGGCATCAGCCATCAGTATCCTGCATCGCCGTAGACAGAGACAGGAAGCAGCGG
                       ttctaac  putative branch site (score: 1)
                                            tcatctt  putative PPT
       aaaagttt  TA-rich tract