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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcaaaacacaacaacaatagaagtaaaaaacaatgagaaacctgctatcctgtcatcatatcgattttaatctcttgtatttgcagTTATGTTTCTGAAACAGAGAGACAGCATGCTGTCCCATCACAGGTACAGCGACATGTACTTGCAGGTATAGCTTCTGCTTTAGGCGGTGTAAGTGCACCA

Basic information

species Arabidopsis thaliana
transcript AT4G16180.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G16180.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv05s0077g00820.t01 (Vitis vinifera), 3'ss of exon 11
-gtgagcaaaacaca-acaacaatagaagtaaaaaacaatgagaaacctgctatcctgtcatcatatcgatttt----aatctcttgtatttg-----cagTTATGTTTCTGAAACAGAGAGACAGCATGCTGTCCCATCACAGGTACAGCGACATGTACTTGCAGGTATAGCTTCTGCTTTAGGCGGTGTAAGTGCACCA
  |   |   ||  | | || |||| |  || | |  | ||  ||| |     |    | |||  ||   | |     ||| ||||| |||||     |||||||||||| ||||||||||||  ||||||| | |||||||| | ||| || ||  || | |||||| | ||||||||  | || ||| | |||||||| 
catatcctttacttataaaaaaatatatatatata-tattggaaaagccagggtttcatgatctcatttttctcctaaaatatcttgcatttgttggacagTTATGTTTCAGAAACAGAGAGAAGGCATGCTATTCCATCACAAGCACAACGTCACATATTGGCAGGTCTTGCTTCTGCCGTGGGTGGTTTGAGTGCACCG
















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|116426967|gb|EG469559.1|EG469559
EST:     AGTGATGTTGTCATTGTGCTTCAGCATCTAAATGAGAAAATACCTTTGAG                         TTATGTTTCTGAAACAGAGAGACAGCATGCTGTCCCATCACAGGTACAGCG
genomic: AGTGATGTTGTCATTGTGCTTCAGCATCTAAATGAGAAAATACCTTTGAGgtgagcaaaa ... gtatttgcagTTATGTTTCTGAAACAGAGAGACAGCATGCTGTCCCATCACAGGTACAGCG
EST: gi|116426969|gb|EG469561.1|EG469561
EST:     AGTGATGTTGTCATTGTGCTTCAGCATCTAAATGAGAAAATACCTTTGAG                         TTATGTTTCTGAAACAGAGAGACAGCATGCTGTCCCATCACAGGTACAGCG
genomic: AGTGATGTTGTCATTGTGCTTCAGCATCTAAATGAGAAAATACCTTTGAGgtgagcaaaa ... gtatttgcagTTATGTTTCTGAAACAGAGAGACAGCATGCTGTCCCATCACAGGTACAGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgagaaacctgctatcctgtcatcatatcgattttaatctcttgtatttgcagTTATGTTTCTGAAACAGAGAGACAGCATGCTGTCCCATCACAGGTACAGCGACATGTACTTGCAGGTATAGCTTCTGCTTTAGGCGGTGTAAGTGCACCA
                                 ttttaat  putative branch site (score: 3)
                                       tctcttgt  CT-rich tract
                          atatcgattttaat  TA-rich tract