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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttatacctactactcgagttattcttccctgacgcctctgtaaccatttctgaactaagccatgaacctcatatctggattctcttttttttttttgatccaattgcagGCAAATTGTGCTGTCTGTAAAGCTGATGATAGTGGTGCAATGTGCTTGAGCTCATCTCCTTCTTGCAGGGACCTATTTGGAACTCATTCTATTGGAATGC

Basic information

species Arabidopsis thaliana
transcript AT1G73960.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G73960.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv17s0000g04200.t01 (Vitis vinifera), 3'ss of exon 8
gtttatacctactactcgagttattcttccctgacgcctctg-taaccatttctgaactaagccatgaacctcatatctggattctcttttttttttttgatccaattgcagGCAAATTGTGCTGTCTGTAAAGCTGATGATAGTGGTGCAATGTGCTTGAGCTCATCTCCTTCTTGCAGGGACCTATTTGGAACTCATTCTATTGGAATGC
      |  |||||  |   || |  |  | ||      ||| |||  |     ||| |    |||| |  | |       ||||      ||||   |  || || ||||||||||||||||||| || ||||| ||||||||||| ||||     |||||||| ||| ||||||| | |||  ||| |||||| || |  |||||  |  
------agttactatcc--tttgtcttctcttgcaaatgctgataataagagtcgaattt--tcatgtatttaaagc--aaattcatgcaattttacgtcttcaaagtgcagGCAAATTGTGCTGTTTGCAAAGCAGATGATAGTGGCGCAACTGCTTTGAGCTCTTCTGCTTCTTGTAAGGATTTATATGGAACCCAGTGCATTGGCTTAT
















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|125319171|gb|EL333256.1|EL333256
EST:     TTATCAAGCAGTTTTTGGGAAATAATGAAGCACGATATCGGAGATACAAG                         GCAAATTGTGCTGTCTGTAAAGCT
genomic: TTATCAAGCAGTTTTTGGGAAATAATGAAGCACGATATCGGAGATACAAGgtttatacct ... ccaattgcagGCAAATTGTGCTGTCTGTAAAGCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctaagccatgaacctcatatctggattctcttttttttttttgatccaattgcagGCAAATTGTGCTGTCTGTAAAGCTGATGATAGTGGTGCAATGTGCTTGAGCTCATCTCCTTCTTGCAGGGACCTATTTGGAACTCATTCTATTGGAATGC
                                      ttttgat  putative branch site (score: 4)
                         ttctcttttttttttt  CT-rich tract
                        attctctttttttttt  TA-rich tract