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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttgattcttaatactgtttatcggaaaaagactcctgtgctttataaacttcactaacttctttttgcttttacgggtttgaatttgcaatgtgaatcaacagCCAACCAGATTTGGGATGGATGAAAAGATTAGAACAGATACTTGGTCGAAAACACCAGCGTAACCTTCAG

Basic information

species Arabidopsis thaliana
transcript AT1G69340.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G69340.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 10
gtaagttgattcttaatactgtttatcggaaaaagactcctgtgctt---tataaacttc-----actaacttctttttgct---tttacgggtttgaatttgcaatgtgaatcaacagCCAACCAGATTTGGGATGGATGAAAAGATTAGAACAGATACTTGGTCGAAAACACCAGCGTAACCTTCAG
                 |   | | || |    ||  || |    ||   | |||| |||     |||||      |||||    ||||    |     |||    ||||||    ||||||||| ||||||||||||||||  |||||| | || ||||||||||| |||||||||||||||||||| 
---------------gcatcatatgtcaggtttagggtcttaaatttgtatgtaaagttcctgcaactaatccagatttgcccactttataactacctgtttctggtgtgaa----cagCCAACCGGATTTGGGATGGATGAGGAGATTACAGCAAATACTTGGTCGGAAACACCAGCGTAACCTTCAT
















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|124867773|gb|EH952210.1|EH952210
EST:     CCTTATTCGATTGTCTACTTTCATTCTGCAGCATCGTTACAAGT                         CCAACCAGATTTGGGATGGATGAAAAGATTAGAACAGATACTTGGTCGAAA
genomic: CCTTATTCGATTGTCTACTTTCATTCTGCAGCATCGTTACAAGTgtaagttgat ... gaatcaacagCCAACCAGATTTGGGATGGATGAAAAGATTAGAACAGATACTTGGTCGAAA
EST: gi|86088362|gb|DR384121.1|DR384121
EST:     CAAAAGCCTTATTCGATTGTCTACTTTCATTCTGCAGCATCGTTACAAGT                         CCAACCAGATTTGGGATGGATGAAAAGATTAGAACAGATACTTGGTCGAAA
genomic: CAAAAGCCTTATTCGATTGTCTACTTTCATTCTGCAGCATCGTTACAAGTgtaagttgat ... gaatcaacagCCAACCAGATTTGGGATGGATGAAAAGATTAGAACAGATACTTGGTCGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttcactaacttctttttgcttttacgggtttgaatttgcaatgtgaatcaacagCCAACCAGATTTGGGATGGATGAAAAGATTAGAACAGATACTTGGTCGAAAACACCAGCGTAACCTTCAG
   cactaac  putative branch site (score: 1)
                             tttgaattt  TA-rich tract