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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatataccaaagtaatcattatatatttgattcatcaagaaagtatatatagtgaatgttagtttcttgcagATCTGTAACGCTGTTGCGGTTGCTGCTCTGCTCAACGCGACTCTAGTTCTTCCTCGGTTTCTTTACAGCAATGTATGGAAAGATCCTAG

Basic information

species Arabidopsis thaliana
transcript AT1G29200.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G29200.3 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv10s0003g01470.t01 (Vitis vinifera), 3'ss of exon 4
---------------------gtaagtatataccaaagtaat-cattatat-atttgattcatcaagaaagtatatatagtgaatgttagtttcttgcagATCTGTAACGCTGTTGCGGTTGCTGCTCTGCTCAACGCGACTCTAGTTCTTCCTCGGTTTCTTTACAGCAATGTATGGAAAGATCCTAG
                        ||| || ||    || ||   ||| || |  | |||  |  | ||  |  || || ||    ||   |   ||||||| || || |||||||| || ||| |||| || || || ||||||||||| ||    ||||||||||||||||| ||||| ||||||||
taggggagtttctcttctctttggagtctagactgctgttatattttaaatgaccttatttctgcacaacttccatgtattgttaatttactgtctgcagATTTGCAATGCTGTTGCTGTGGCTTCTCTTCTTAATGCTACTCTAGTTCTCCCCAAATTTCTTTACAGCAATGTGTGGAAGGATCCTAG
















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|116409042|gb|EG451634.1|EG451634
EST:     GTTACATCATGGTTAGTGCAAATGGAGGCCTTAATCAACAGCGCGTGGCT                         ATCTGTAACGCTGTTGCGGTTGCTGCTCTGCTCAACGCGACTCTAGTTCTT
genomic: GTTACATCATGGTTAGTGCAAATGGAGGCCTTAATCAACAGCGCGTGGCTgtaagtatat ... tttcttgcagATCTGTAACGCTGTTGCGGTTGCTGCTCTGCTCAACGCGACTCTAGTTCTT
EST: gi|116408812|gb|EG451404.1|EG451404
EST:     GTTACATCATGGTTAGTGCAAATGGAGGCCTTAATCAACAGCGCGTGGCT                         ATCTGTAACGCTGTTGTGGTTGCTGCTCTGCTC
genomic: GTTACATCATGGTTAGTGCAAATGGAGGCCTTAATCAACAGCGCGTGGCTgtaagtatat ... tttcttgcagATCTGTAACGCTGTTGCGGTTGCTGCTCTGCTC
EST: gi|116408813|gb|EG451405.1|EG451405
EST:     GTTACATCATGGTTAGTGCAAATGGAGGCCTTAATCAACAGCGCGTGGCT                         ATCTGTAACGCTGTTGTGGTTGCTGCTCTGCTCAACGCGACTCTAGTTCTT
genomic: GTTACATCATGGTTAGTGCAAATGGAGGCCTTAATCAACAGCGCGTGGCTgtaagtatat ... tttcttgcagATCTGTAACGCTGTTGCGGTTGCTGCTCTGCTCAACGCGACTCTAGTTCTT
EST: gi|116409036|gb|EG451628.1|EG451628
EST:     GTTACATCATGGTTAGTGCAAATGGAGGCCTTAATCAACAGCGCGTGGCT                         ATCTGTAACGCTGTTGCGGTTGCTGCTCTGCTCAACGCGACTCTAGTTCTT
genomic: GTTACATCATGGTTAGTGCAAATGGAGGCCTTAATCAACAGCGCGTGGCTgtaagtatat ... tttcttgcagATCTGTAACGCTGTTGCGGTTGCTGCTCTGCTCAACGCGACTCTAGTTCTT
EST: gi|116408811|gb|EG451403.1|EG451403
EST:     GTTACATCATGGTTAGTGCAAATGGAGGCCTTAATCAACAGCGCGTGGCT                         ATCTGTAACGCTGTTGCGGTTGCTGCTCTGCTCAACGCGACTCTAGTTCTT
genomic: GTTACATCATGGTTAGTGCAAATGGAGGCCTTAATCAACAGCGCGTGGCTgtaagtatat ... tttcttgcagATCTGTAACGCTGTTGCGGTTGCTGCTCTGCTCAACGCGACTCTAGTTCTT
EST: gi|116409043|gb|EG451635.1|EG451635
EST:     GTTACATCATGGTTAGTGCAAATGGAGGCCTTAATCAACAGCGCGTGGCT                         ATCTGTAACGCTGTTGCGGTTGCTGCTCTGCTCAACGCGACTCTAGTTCTT
genomic: GTTACATCATGGTTAGTGCAAATGGAGGCCTTAATCAACAGCGCGTGGCTgtaagtatat ... tttcttgcagATCTGTAACGCTGTTGCGGTTGCTGCTCTGCTCAACGCGACTCTAGTTCTT
EST: gi|116408810|gb|EG451402.1|EG451402
EST:     GTTACATCATGGTTAGTGCAAATGGAGGCCTTAATCAACAGCGCGTGGCT                         ATCTGTAACGCTGTTGCGGTTGCTGCTCTGCTCAACGCGACTCTAGTTCTT
genomic: GTTACATCATGGTTAGTGCAAATGGAGGCCTTAATCAACAGCGCGTGGCTgtaagtatat ... tttcttgcagATCTGTAACGCTGTTGCGGTTGCTGCTCTGCTCAACGCGACTCTAGTTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attatatatttgattcatcaagaaagtatatatagtgaatgttagtttcttgcagATCTGTAACGCTGTTGCGGTTGCTGCTCTGCTCAACGCGACTCTAGTTCTTCCTCGGTTTCTTTACAGCAATGTATGGAAAGATCCTAG
       atttgat  putative branch site (score: 5)
                                             tttcttgc  putative PPT
                   aagaaagtatatata  TA-rich tract