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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataattgatttgcatagtttttgtgttgtttggggttattgaacttttcattgtaggcttgcttatcatctttctatggtaatgactaacgattccgtatcagGTTCAAGTTGGAGGATCACCACTATATAAAGTTGAGAGAAAGCTGGGGAAGGGTGGTTTTGGACAAGTATTTGTCGGACGTCGTATTAGTGGCGGTAATG

Basic information

species Arabidopsis thaliana
transcript AT3G13670.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G13670.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA18G53810.1 (Glycine max), 3'ss of exon 1
gtataattgatttgcatagtttttgtgttgtttggggttattgaacttttcattgtaggcttgcttatcatctttctatggtaatgactaacgattccgtatcagGTTCAAGTTGGAGGATCACCACTATATAAAGTTGAGAGAAAGCTGGGGAAGGGTGGTTTTGGACAAGTATTTGTCGGACGTCGTATTAGTGGCGGTAATG-
                         | || |||    ||| | |    |  ||| |    ||| | ||  | |     || | ||   | |    |   ||  |||||||||| |||||||||||  | || ||||| ||||| || ||||| || ||||| |||||||| || ||||| || |||||  | | ||| ||||| | 
-------------------------tattcttttcttttaattattactcaattct---tttgttgatattgtcaaggtgcttattgttgatatgttaataaaaggTTCAAGTAGGAGGATCACCTGTCTACAAAGTAGAGAGGAAACTGGGCAAAGGTGGCTTTGGACAGGTTTTTGTTGGCCGTCGAGTCACTGGTGGTAACGA

upper sequence: AT3G13670.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv06s0004g01090.t01 (Vitis vinifera), 3'ss of exon 1
-gtataattgatttgcatagtttttgtgttgtttggggttattgaacttttcattgtaggcttgcttatcatctttctatggtaatgactaacgattccgtatcagGTTCAAGTTGGAGGATCACCACTATATAAAGTTGAGAGAAAGCTGGGGAAGGGTGGTTTTGGACAAGTATTTGTCGGACGTCGTATTAGTGGCGGTAATG
  | |||   |    ||   |  ||   ||||   |  |||||     | || || | |   | | |   || |||   | ||  | | |   ||||   | |||||||||||| || ||||||||  |||||||| |||| || ||| |||| |||||||||||||| ||||| ||||| || || ||| |||  || || ||||
tctctaaacaagacacagtttaattaaattgt---gatttatttgtggtatctttttgg---ttcattctattttttggtagttcttattttggatttattttcagGTTCAAGTAGGGGGATCACCTGTATATAAAATTGAAAGGAAGTTGGGTAAGGGTGGTTTTGGTCAAGTGTTTGTTGGTCGCCGTGTTACAGGTGGAAATG
















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|86068919|gb|DR364676.1|DR364676
EST:     AGGCGGCTGCTCAGGAAGAAGAAGGAAATACTGCTCCTTTCCCTGAGAGG                         GTTCAAGTTGGAGGATCACCACTATATAAAGTTGAGAGAAAGCTGGGGAAG
genomic: AGGCGGCTGCTCAGGAAGAAGAAGGAAATACTGCTCCTTTCCCTGAGAGGgtataattga ... tccgtatcagGTTCAAGTTGGAGGATCACCACTATATAAAGTTGAGAGAAAGCTGGGGAAG
EST: gi|116444765|gb|EG487357.1|EG487357
EST:     AGGCGGCTGCTCAGGAAGAAGAAGGAAATACTGCTCCTTTCCCTGAGAGG                         GTTCAAGTTGGAGGATCACCACTATATAAAGTTGAGAGAAAGCTGGGGAAG
genomic: AGGCGGCTGCTCAGGAAGAAGAAGGAAATACTGCTCCTTTCCCTGAGAGGgtataattga ... tccgtatcagGTTCAAGTTGGAGGATCACCACTATATAAAGTTGAGAGAAAGCTGGGGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattgtaggcttgcttatcatctttctatggtaatgactaacgattccgtatcagGTTCAAGTTGGAGGATCACCACTATATAAAGTTGAGAGAAAGCTGGGGAAGGGTGGTTTTGGACAAGTATTTGTCGGACGTCGTATTAGTGGCGGTAATG
                                   gactaac  putative branch site (score: 1)
              ttatcat  TA-rich tract