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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtaacatcccttttttattcatcatcttttattttgggttgcatactgtgataagttttgatatcgtggtcttctagGTGGAGGACGATGTTTGGTGTTGCAGTTATCCCTTCCGTTCTATTGGCCATAGGAATGGCTTTTTCTCCAGAAAGCCCAAGGTGGCTCGTTCAG

Basic information

species Arabidopsis thaliana
transcript AT5G16150.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G16150.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv14s0006g02720.t01 (Vitis vinifera), 3'ss of exon 7
------------------gtatgtaacatcccttttttattcatcatcttttattttgggttgcatactg-tgataagttttgatatcgtggtcttctagGTGGAGGACGATGTTTGGTGTTGCAGTTATCCCTTCCGTTCTATTGGCCATAGGAATGGCTTTTTCTCCAGAAAGCCCAAGGTGGCTCGTTCAG
                   |  | ||  | ||   |  | |  |||    | ||  |   || |||   | | || |  |||  ||   |  |     ||||||||||| |||||||||||||| ||| |||| ||  ||||||||||  | |||||||| ||||||||||| || ||  |||||||  |||||
cttctccattctgcttatttcagaaaacttccaagtgcagtgttcactgctcatcctctctttcatgtagctcattatgttttctaatttttttaatcagGTGGAGGACAATGTTTGGTGTTGCTGTTGTCCCCTCTATTCTATTGGCTTTGGGAATGGCATTTTCTCCAGAGAGTCCTCGGTGGCTTTTTCAG
















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|163969644|gb|ES138180.1|ES138180
EST:     CCCCTTGCAGCAAACCCTCTATG                         GTGGAGGACGATGTTTGGTGTTGCAGTTATCCCTTCCGTTCTATTGGCCAT
genomic: CCCCTTGCAGCAAACCCTCTATGgtatgtaaca ... ggtcttctagGTGGAGGACGATGTTTGGTGTTGCAGTTATCCCTTCCGTTCTATTGGCCAT
EST: gi|116470693|gb|EG513285.1|EG513285
EST:     ATACTTGCAGCCTTGATAGCTGGATTACCCCTTGCAGCAAACCCTCTATG                         GTGGAGGACGATGTTTGGTGTTGCAGTTATCCCTTCCGTTCTATTGGCCAT
genomic: ATACTTGCAGCCTTGATAGCTGGATTACCCCTTGCAGCAAACCCTCTATGgtatgtaaca ... ggtcttctagGTGGAGGACGATGTTTGGTGTTGCAGTTATCCCTTCCGTTCTATTGGCCAT
EST: gi|124952084|gb|EL027384.1|EL027384
EST:     ATTACCCCTTGCAGCAAACCCTCTACG                         GTGGAGGACGATGTTTGGTGTTGCAGTTATCCCTTCCGTTCTATTGGCCAT
genomic: ATTACCCCTTGCAGCAAACCCTCTATGgtatgtaaca ... ggtcttctagGTGGAGGACGATGTTTGGTGTTGCAGTTATCCCTTCCGTTCTATTGGCCAT
EST: gi|164042456|gb|ES081840.1|ES081840
EST:     CCTTGATAGCTGGATTACCCCTTGCAGCAAACCCTCTATG                         GTGGAGGACGATGTTTGGTGTTGCAGTTATCCCTTCCGTTCTATTGGCCAT
genomic: CCTTGATAGCTGGATTACCCCTTGCAGCAAACCCTCTATGgtatgtaaca ... ggtcttctagGTGGAGGACGATGTTTGGTGTTGCAGTTATCCCTTCCGTTCTATTGGCCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catcttttattttgggttgcatactgtgataagttttgatatcgtggtcttctagGTGGAGGACGATGTTTGGTGTTGCAGTTATCCCTTCCGTTCTATTGGCCATAGGAATGGCTTTTTCTCCAGAAAGCCCAAGGTGGCTCGTTCAG
                                 ttttgat  putative branch site (score: 4)
                                               tcttct  putative PPT
                            ataagttttgatat  TA-rich tract