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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtacctaactgtcctttctaggccatttttttccagagttctcatctcttatttatgtcattgaaagtggcaatgatcagcttctgataccaaattcacattgcaatttcagGATTATACCCCTTATGCTTGTTCAAAGATCATCACATCTGCTCCTGGTGCTGGGGATCATCACGGCTGCCCTTATCGACATTTCAG

Basic information

species Arabidopsis thaliana
transcript AT1G67320.2
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G67320.2 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA05G28150.1 (Glycine max), 3'ss of exon 15
-------------------------------------gtaagtacctaactgtcctttctaggccatttttttcca-gagttctcatctcttatttatgt-cattgaaagtg-gcaatgatcagcttctgataccaa-attcacattgcaatttcagGATTATACCCCTTATGCTTGTTCAAAGATCATCACATCTGCTCCTGGTGCTGGGGATCATCACGGCTGCCCTTATCGACATTTCAG
                                       || ||  |  ||||   |  |   |||||||    ||  |  | |||    || | ||||   | || | ||     ||||| || |||    |  || |||   || |   || ||||||||||| || ||| |||||  |||||| ||  ||||  ||||||| |||||||||||||| || ||||| ||||||||||||||
gtaagttctgaatttccccactgatttatgggatgtttcaaatatatttctgttgctgattt-ccattttgaaacacaaaatttcaatgtttttgtatgcataatgcatgtatatgatgatgagtttcaacaagtaatattttgatggatgttacagGATTATACTCCCTATTCTTGTCAAAAGATTATTTCATCAACTCCTGGAGCTGGGGATCATCATGGTTGCCCCTATCGACATTTCAG

upper sequence: AT1G67320.2 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA08G11130.1 (Glycine max), 3'ss of exon 15
------------------------------------------------gtaagtacctaactgtcctttctaggccatttttt----tccagagttctcat-ctcttatttatgtcattgaaagtggcaatgatcagcttctgataccaa-attcacattgcaatttcagGATTATACCCCTTATGCTTGTTCAAAGATCATCACATCTGCTCCTGGTGCTGGGGATCATCACGGCTGCCCTTATCGACATTTCAG
                                                 |  ||  || | |    |||  |  | |   |||      || | ||   ||  | || | |   | ||  |        ||||| || |||    |  || |||   || |   || ||||| || || || ||| |||||  |||||| ||  ||||  ||||||| ||||| |||||||| || |||||||||||| |||||||
gtaagttttgaatttcccccactgatttatgagatgttttaaatatatttctgttactgatttctattttgaaactaggctttgaaacacaaaatttcaatgtttttgtatgcataatgcatgcatattatgatgagtttcaacaagtaatattttgatggatgttacagGACTACACTCCCTATTCTTGTCAAAAGATTATTTCATCAACTCCTGGAGCTGGAGATCATCATGGTTGCCCTTATCGAAATTTCAG

upper sequence: AT1G67320.2 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: Vv05s0051g00930.t01 (Vitis vinifera), 3'ss of exon 15
gtaagtacctaactgtcctttctaggccatttttttccagagttctcatctcttatttatgtcattgaaagtggcaatgatcagcttctgataccaaattcacattgcaatttcagGATTATACCCCTTATGCTTGTTCAAAGATCATCACATCTGCTCCTGGTGCTGGGGATCATCACGGCTGCCCTTATCGACATTTCAG
        || ||  |  |   ||       ||       || | | |  || ||| | || |||  |||    |||   |||       | ||    ||    || |  || |||||||| || |||||| |||||  ||| || ||  ||||  |||||||||  || ||||||||||| ||||||||||||||||| ||
--------ctcacctttttacttaaaagtgcttaaaaataagatatgacttcctatatgtg-catgtaaaccaacaacattca-------aaacatttttgttttttcctttgcagGATTACACACCTTATTCTTGTCAAAAAATTATTTCATCAACTCCTGGTGTAGGCGATCATCACGGTTGCCCTTATCGACATTTTAG

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|125208099|gb|EL223053.1|EL223053
EST:     AGTATGCGTATGCCATTCGCCATAACTATGGGAAGGAAGGCAAGAGAACA                         GATTATACCCCTTATGCTTGTT
genomic: AGTATGCGTATGCCATTCGCCATAACTATGGGAAGGAAGGCAAGAGAACAgtaagtacct ... gcaatttcagGATTATACCCCTTATGCTTGTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcattgaaagtggcaatgatcagcttctgataccaaattcacattgcaatttcagGATTATACCCCTTATGCTTGTTCAAAGATCATCACATCTGCTCCTGGTGCTGGGGATCATCACGGCTGCCCTTATCGACATTTCAG
                        ttctgat  putative branch site (score: 3)
                                  aaattca  TA-rich tract