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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagataatatgaagtctgaaaagtttatacttctccaaaaaatattgaactttgctcagtcagatttggtgtgacatgatgggaagttagatatctagttttcaagaatgtcttgggactttgtgagacatcaaatcacttgaaacttgcttcttctattatctaataaaattgttgttgttctattttgcagAGAACAATCAACTCAGGCCATTCTGCAAGCATTAAGGGATGAGACATTGAACGATCCCAGAGACCGTATTGAGATTGCACAGAGCCATGCATTCTACAGG

Basic information

species Arabidopsis thaliana
transcript AT2G41540.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G41540.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv08s0007g09000.t01 (Vitis vinifera), 3'ss of exon 4
gtagataatatgaagtctgaaaagtttatacttctccaaaaaatattgaactttgctcagtcagatttggtgtgacatgatgggaagttagatatctagttttcaagaatgtcttgggactttgtgagacatcaaatcacttgaaacttgcttcttctattatctaataaaattgttgttgttctattttgcagAGAACAATCAACTCAGGCCATTCTGCAAGCATTAAGGGATGAGACATTGAACGATCCCAGAGACCGTATTGAGATTGCACAGAGCCATGCATTCTACAGG
                                                                                                    ||||  |  | | |    |  ||| |   | || | |      |||   | | |   || | | |  |     ||||| | ||  || || ||| ||||   || | || | |||||| ||||||||||| ||||| || |||||||||||||| ||  | ||||||||||||||||  ||||| |||||||||
-------------------------------------------------------------------------------------------------gtatttcctggttttttattaaaattgagcagcctcgatttttgacaaatccgatgcca-taatgtgtgtttgg--tgttgatattggatgtt-cagGGAACTTGCATCACAAGGCATTCTTCAAGCATTAAGAGATGAAACCTTGAACGATCCCAGGGAAAGGATTGAGATTGCACAGACTCATGCTTTCTACAGG
















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|164135261|gb|ES143350.1|ES143350
EST:     ACACTTTACAAGATACTCATCACAAG                         AGAACAATCAACTCAGGCCATCCTGCAAGCATTAAGGGA
genomic: ACACTTTACAAGATACTCATCACAAGgtagataata ... tattttgcagAGAACAATCAACTCAGGCCATTCTGCAAGCATTAAGGGA
EST: gi|86076340|gb|DR372097.1|DR372097
EST:     GTCGAATCATGTCCTATTTTAAAGACACTTTACAAGATACTCATCACAAG                         AGAACAATCAACTCAGGCCATTCTGCAAGCATTAAGGGATGAGACATTGAA
genomic: GTCGAATCATGTCCTATTTTAAAGACACTTTACAAGATACTCATCACAAGgtagataata ... tattttgcagAGAACAATCAACTCAGGCCATTCTGCAAGCATTAAGGGATGAGACATTGAA
EST: gi|86083325|gb|DR379084.1|DR379084
EST:     GTCGAATCATGTCCTATTTTAAAGACACTTTACAAGATACTCATCACAAG                         AGAACAATCAACTCAGGCCATTCTGCAAGCATTAAGGGATGAGACATTGAA
genomic: GTCGAATCATGTCCTATTTTAAAGACACTTTACAAGATACTCATCACAAGgtagataata ... tattttgcagAGAACAATCAACTCAGGCCATTCTGCAAGCATTAAGGGATGAGACATTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgaaacttgcttcttctattatctaataaaattgttgttgttctattttgcagAGAACAATCAACTCAGGCCATTCTGCAAGCATTAAGGGATGAGACATTGAACGATCCCAGAGACCGTATTGAGATTGCACAGAGCCATGCATTCTACAGG
                      atctaat  putative branch site (score: 3)
                                          ttctatttt  putative PPT
            ttcttctattatctaa  TA-rich tract