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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgttatactacttttaggtggcgaagtatttgcttgctcttggactaatcgtaaaaaggatgtttactctttcttagGTTGGTTTCAACATGAGGAAAGTGACAAAAGGAAGTGTCACGATCAAGCTTTGGGATCTCGGTGGTCAACCTAGGTTCCGCAGCATGTGGGAACGTTACT

Basic information

species Arabidopsis thaliana
transcript AT5G67560.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G67560.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: PP1S263_59V6.1 (Physcomitrella patens), 3'ss of exon 3
-----------------------------------------------gtgtgttatactacttttaggtggcgaagtatttgcttgctcttggactaatcg---taaaaaggatgtttactctttcttagGTTGGTTTCAACATGAGGAAAGTGACAAAAGGAAGTGTCACGATCAAGCTTTGGGATCTCGGTGGTCAACCTAGGTTCCGCAGCATGTGGGAACGTTACT
                                                  | |||   || ||| |  |     |  | | | ||     | | ||  | |   | ||   | | ||     |     |||| || ||||||||| | || ||||| ||||| ||||| || |||||||||||||||||||||||||||||| | ||||| ||||||||||| || || |
gtatgttgtcttctccagattattctctttgtactcttatacttgattctttttaatttaatttcaattcttagaagagtgggttcaaggttgccttgttgattttaattagtttttcgacataatgcagGTGGGGTTCAACATGCGTAAGGTGACGAAAGGCAGTGTAACCATCAAGCTTTGGGATCTCGGTGGTCAACCTCGTTTCCGAAGCATGTGGGAGCGATATT

upper sequence: AT5G67560.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: PP1S103_13V6.1 (Physcomitrella patens), 3'ss of exon 3
---------------------------------------------------------------------------------------------------------gtgtgttatactacttttaggtggcgaagtatttgcttgctcttggactaatcgtaaaaaggatgtttactctttct------tagGTTGGTTTCAACATGAGGAAAGTGACAAAAGGAAGTGTCACGATCAAGCTTTGGGATCTCGGTGGTCAACCTAGGTTCCGCAGCATGTGGGAACGTTACT
                                                                                                            | ||    ||  ||| | ||  || |||  |  ||     ||   |  |  | |||    |   |  |  |  |       |||| || ||||||||| | || ||||| || || ||||| || ||||| || |||||||||||||| |||||  | ||||| ||||||||||| ||||| |
gtacgtcgtctcctaaagggggtcgttggaatcggtttcacaccactattagagctttttgtcattttacatgctgcatctctgcttcttgattactcgcagtttagttattggcgtaaattttgctgttgatgtaagtttttaagtatgtctttttgttgaaatttgttcgtttttgtgatgaaatgcagGTGGGGTTCAACATGCGCAAGGTGACGAAGGGTAGTGTGACTATCAAACTCTGGGATCTCGGTGGCCAACCCCGATTCCGGAGCATGTGGGAGCGTTATT
















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|164145622|gb|EL972669.1|EL972669
EST:     ACCGGTGGATACAGTGAAGACATGATCCCTACG                         GTTGGTTTCAAC
genomic: ACCGGTGGATACAGTGAAGACATGATCCCTACGgtgtgttata ... tctttcttagGTTGGTTTCAAC
EST: gi|164040751|gb|ES069513.1|ES069513
EST:     CAACCGGTGGATACAGTGAAGACATGATCCCTACG                         GTTGGTTTCAACATGAGGAAAGTGACAAAAGGAAGTGTCACGATCAAGCTT
genomic: CAACCGGTGGATACAGTGAAGACATGATCCCTACGgtgtgttata ... tctttcttagGTTGGTTTCAACATGAGGAAAGTGACAAAAGGAAGTGTCACGATCAAGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaagtatttgcttgctcttggactaatcgtaaaaaggatgtttactctttcttagGTTGGTTTCAACATGAGGAAAGTGACAAAAGGAAGTGTCACGATCAAGCTTTGGGATCTCGGTGGTCAACCTAGGTTCCGCAGCATGTGGGAACGTTACT
                    gactaat  putative branch site (score: 2)
                                      tgtttactctttctt  putative PPT
                             taaaaa  TA-rich tract