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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttattttatttatttgtgttgcctaagatttcgattgttgtatctcttttcttataatgcttctactttttactttgtgcatagtgcttgaaaagtatattccttattatgactttgattaagggtggagcagAGTCTTAGCAGGTTCAGTTGCGGGTTTGTCTATCTTGGCTTTAGATGATTCCAACCAGCGTCGCACACTTGCTCTATACCTCTTGGCTAGATTAGGCCAG

Basic information

species Arabidopsis thaliana
transcript AT5G51150.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G51150.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv16s0039g02700.t01 (Vitis vinifera), 3'ss of exon 2
gtaagtttat-----tttatttatttgtgttgcctaagatttcgattgttgtatctcttttcttataatgcttctactttttactttgtgcatagtgcttga-aaagtatattccttatt-atgactttgattaaggg-----tggagcagAGTCTTAGCAGGTTCAGTTGCGGGTTTGTCTATCTTGGCTTTAGATGATTCCAACCAGCGTCGCACACTTGCTCTATACCTCTTGGCTAGATTAGGCCAG
||||||||       || || |   | | | |   | |||||  ||| || ||   |||   ||   ||| ||     |  |     |    |  ||| ||| | ||  |||||| |||| ||||||||| | |||||     ||||||||| | |||||||||||||||||||||||||||||  | || ||||||||||| |    | | || ||||||||| |||| ||    |||||  | | ||||
gtaagtttccaatccttaatatccctttctagtacatgatttgtatttttttaaaacttcattttgtatgttttggaatgatttgaagctgttgatgcatgatagagcctattccatatttatgactttgttaaaggggatgatggagcagAATTTTAGCAGGTTCAGTTGCGGGTTTGTCTATTCTAGCCTTAGATGATTCTAGTAGGAGACGTACACTTGCTTTATATCTTGCAGCTAGGCTTGCCCAG
















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|125160842|gb|EL188238.1|EL188238
EST:     CGCCATTGAATTC                         AGTCTTAGCAGGTTCAGTTGCGGGTTTGTCTATCTTGGCTTTAGATGATTC
genomic: CGCCATTGAATTCgtaagtttat ... ggtggagcagAGTCTTAGCAGGTTCAGTTGCGGGTTTGTCTATCTTGGCTTTAGATGATTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatagtgcttgaaaagtatattccttattatgactttgattaagggtggagcagAGTCTTAGCAGGTTCAGTTGCGGGTTTGTCTATCTTGGCTTTAGATGATTCCAACCAGCGTCGCACACTTGCTCTATACCTCTTGGCTAGATTAGGCCAG
                                  ctttgat  putative branch site (score: 5)
                 tatattccttattat  TA-rich tract