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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtttcagtgccatttggagattaatagagttcacttgctgtgatagtaacaatatctcttatgttttgcagATCAATGAGGAGATAGTTCAAGAAGTGGTTAACATGGGATTTGATAGAAACCAGGTTTTGGAATCTCTACGCAACAGAACACAAAACGAT

Basic information

species Arabidopsis thaliana
transcript AT3G29160.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G29160.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA13G05700.1 (Glycine max), 3'ss of exon 6
--------------------gttg--gtttcagtgccatttggagattaatagagttcactt--gctgtgatagtaacaatatctcttatg-ttttgcagATCAATGAGGAGATAGTTCAAGAAGTGGTTAACATGGGATTTGATAGAAACCAGGTTTTGGAATCTCTACGCAACAGAACACAAAACGAT
                     |||  | |    ||   ||||    ||||||   |  | |        || |  | |||    | | | | ||||| ||||  ||||||||||  |||| ||||||||||| ||||||||||| || || ||  |  | ||||||||  ||||||| | |||||| || 
ccaacaccacacgcataagtattgcagataatatggtgtttgttacttaatatgttataatccaaaaaagaaaaaatcaacgaatatcacggttttgtagATTGATGAGGAGATTCTTCAGGAAGTGGTTAATATGGGATTTGACAGGAATCAATTGGTTGAATCTCTTAGCAACAGGATACAAAATGAG

upper sequence: AT3G29160.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv14s0108g01230.t01 (Vitis vinifera), 3'ss of exon 6
------------------------gttggtttcagtgccatttggagattaatagagttcacttgc-tgtgat--agtaacaatatctcttatgttttgcagATCAATGAGGAGATAGTTCAAGAAGTGGTTAACATGGGATTTGATAGAAACCAGGTTTTGGAATCTCTACGCAACAGAACACAAAACGAT
                         ||| | |  ||   |||   | | |    | |  ||  ||| ||  ||  | | ||    |   |||  |  |||||||  ||||||||||  |||| ||||||||||| ||||||||||| || || |   || | |||||||| |||||||||  |||||| |||
ggttcctttaagggttacatacattttgttctttgtattattattatact--ctgtgaacagctgcatgaaattaattcactcattgctttacctcatgcagATTGATGAGGAGATTCTTCAGGAAGTGGTTAAGATGGGATTTGACAGGAATCTACTTGTTGAATCTCTTCGCAACAGAGTACAAAATGAT
















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|47832194|gb|CK121878.1|CK121878
EST:     CTCGTTATCTTGCTGTCTCTCCACCGGATACAGTAGAGCAGGCTAAAAAG                         ATCAATGAGGAGATAGTTCAAGAAGTGGTTAACATGGGATTTGATAGAAAC
genomic: CTCGTTATCTTGCTGTCTCTCCACCGGATACAGTAGAGCAGGCTAAAAAGgttggtttca ... tgttttgcagATCAATGAGGAGATAGTTCAAGAAGTGGTTAACATGGGATTTGATAGAAAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagattaatagagttcacttgctgtgatagtaacaatatctcttatgttttgcagATCAATGAGGAGATAGTTCAAGAAGTGGTTAACATGGGATTTGATAGAAACCAGGTTTTGGAATCTCTACGCAACAGAACACAAAACGAT
                           tagtaac  putative branch site (score: 1)
                                      tctcttat  putative PPT
                              taacaatat  TA-rich tract