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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtattttaccttatgcatccttgctaatccttgatttctaagcaatgcagttcatatattctatttgtattcagccaaaaacaattcttgtattgccaatactaacacaagtactctgttcaagtaaaatcttatttattggtgtcttctttttaaagGGAGCAAAAATCATCATTGGTGGCAAAAGGCACAGTCTAGGGATGACTTTCTATGAGCCTACTGTTATCCGCGATGTTTCGGATAACATGATCATGTCTA

Basic information

species Arabidopsis thaliana
transcript AT1G79440.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G79440.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: LOC_Os02g07760.1 (Oryza sativa), 3'ss of exon 15
gtttgtattttaccttatgcatccttgctaatccttgatttctaagcaatgcagttcatatattctatttgtattcagccaaaaacaattcttgtattgccaatactaacacaagtactctgttcaagtaaaatcttatttattggtgtcttctttttaaagGGAGCAAAAATCATCATTGGTGGCAAAAGGCACAGTCTAGGGATGACTTTCTATGAGCCTACTGTTATCCGCGATGTTTCGGATAACATGATCATGTCTA
                                                            |  | |   ||  |||||  ||| ||        | ||     |  |    |   |  ||| | ||| |  |   | |  ||      || || ||||  |||||||||| |||||  ||||||| ||||||||||| || |||||| | ||||||||||| |||||  |  |  | ||     || | ||| |  | |  |
------------------------------------------------------------ttgtttgcctgc-ttcagttaaagactgggaccttgtttgttttcttttgtctgcttatctttgcaactgca-cgtaagatacccccatcatccttttgcagGGAGCAAACATCATGCTTGGTGGTAAAAGGCACAGCCTTGGGATGTCATTCTATGAGCCAACTGTAGTAGGGAACGTCAGCAATGATATGCTTCTTTTCA
















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|116482451|gb|EG525043.1|EG525043
EST:     GTAGGGACATTTGTACAAGATGCTGTTTCTAAG                         GGAGCAAAAATCATCATTGGTGGCAAAAGGCACAGTCTAGGGATGACTTTC
genomic: GTAGAGACATTTGTACAAGATGCTGTTTCTAAGgtttgtattt ... ctttttaaagGGAGCAAAAATCATCATTGGTGGCAAAAGGCACAGTCTAGGGATGACTTTC
EST: gi|125037586|gb|EL109855.1|EL109855
EST:     TGCAAAAGGTAGAGACATTTGTACAAGATGCTGTTTCTAAG                         GGAGCAAAAATCATCATTGGTGGCAAAAGGCACAGTCTAGGGATGACTTTC
genomic: TGCAAAAGGTAGAGACATTTGTACAAGATGCTGTTTCTAAGgtttgtattt ... ctttttaaagGGAGCAAAAATCATCATTGGTGGCAAAAGGCACAGTCTAGGGATGACTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacacaagtactctgttcaagtaaaatcttatttattggtgtcttctttttaaagGGAGCAAAAATCATCATTGGTGGCAAAAGGCACAGTCTAGGGATGACTTTCTATGAGCCTACTGTTATCCGCGATGTTTCGGATAACATGATCATGTCTA
 tactaac  putative branch site (score: 0)
                                       tgtcttcttttt  putative PPT
               ttcaagtaaaatctta  TA-rich tract