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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaagcagaatcgaacagagcctatggtttcctgcgtcgattgtagatgatcagtagtaggtccagttaccaaagtgcttaaccttgttcacatctttttgcttctatgcagTGTCGTCTACCAGCAACAATACGGTGCCTTTCACACCCAAGTGCACACGTACGTGCCTTAAGCACGTCAGTACTACGTGATATCATGAACCAAAGCTCCA

Basic information

species Arabidopsis thaliana
transcript AT1G22770.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G22770.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA09G07240.1 (Glycine max), 3'ss of exon 14
-gtaaaagcagaatcgaac--agagcctatggtttcctgcgtcgattgtagatgatcagtagtaggtccagttaccaaagtgcttaaccttgttcacatctttttgcttctatgcagTGTCGTCTACCAGCAACAATACGGTGCCTTTCACACCCAAGTGCACACGTACGTGCCTTAAGCACGTCAGTACTACGTGATATCATGAACCAAAGCTCCA
 |  |||  | | || |     ||  | |  ||  |  | ||   || |   |  | |  | |||      | |||||      || |||||| || ||            ||||||||||| |||||||| |||||  | |||||||| || ||||||||||| || |||||  | ||||  || ||  | ||||| ||  || |    || || |
tgagaaaagaaattcaagttttgaaacaagagtaactcgtgtgtgttctg--tagttaa-aatagaattgttgaccaa------tatccttgtgcatatgcac--------atgcagTGTCGCCTACCAGCTACAATCAGATGCCTTTCTCATCCAAGTGCACATGTCCGTGCTCTGAGCAGTTCGGTTATTCGTGACATTTTGCATACTAGTTCAA

upper sequence: AT1G22770.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv18s0157g00020.t01 (Vitis vinifera), 3'ss of exon 15
gtaaaagcagaatcgaacagagcctatggtttcctgcgtcgattgtagatgatcagta-gtaggtccagttaccaaagtgcttaaccttgttcacatctttttgcttctatgcagTGTCGTCTACCAGCAACAATACGGTGCCTTTCACACCCAAGTGCACACGTACGTGCCTTAAGCACGTCAGTACTACGTGATATCATGAACCAAAGCTCCA
  |   |||   ||      ||   ||  |  | ||| | |||| |   | ||   ||   |   ||  || | || ||| || | || | | |           |||| ||||||||||| ||||||| || || || |||||||| || ||||| ||||| || |||||| | ||||| ||||| || |||||| |  || |     |||| |
--attggcatcctcagtagcagaagattttcacatgctttgatt-tctttaatttttatacactaccttttgctaatgtgatttatctgggtga-----------ttct-tgcagTGTCGTGTACCAGCTACCATCCGATGCCTTTCTCATCCAAGCGCACATGTCCGTGCCCTCAGCACATCAGTTCTTCGTGATGTTCTGCAAAGTGGCTCAA
















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|86060420|gb|DR356177.1|DR356177
EST:     GGGGGCCATCTGGACTAGCAGTGGTCGACGGTTTATCCAATCTATTGAAG                         TGTCGTCTACCAGCAACAATACGGTGCCTTTCACACCCAAGTGCACACGTA
genomic: GGGGGCCATCTGGACTAGCAGTGGTCGACGGTTTATCCAATCTATTGAAGgtaaaagcag ... ttctatgcagTGTCGTCTACCAGCAACAATACGGTGCCTTTCACACCCAAGTGCACACGTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taggtccagttaccaaagtgcttaaccttgttcacatctttttgcttctatgcagTGTCGTCTACCAGCAACAATACGGTGCCTTTCACACCCAAGTGCACACGTACGTGCCTTAAGCACGTCAGTACTACGTGATATCATGAACCAAAGCTCCA
                   gcttaac  putative branch site (score: 3)
                                  catctttttgcttct  putative PPT
                                   atcttttt  TA-rich tract