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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacgttaagaacttaagattagattcttgatgaattttttgtatttgacattctcttttctcttcttaagATTGATGCCATGAAGCTTGAATTGGAGAAATTTTATGGGAAGAACCCTATAGAGTCGAAAGATATGTCACGTATCGTAAACTCGAATCACTTTGATCGCT

Basic information

species Arabidopsis thaliana
transcript AT1G44170.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G44170.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA14G24140.1 (Glycine max), 3'ss of exon 6
---gtaa-cgttaagaacttaagattagattcttgatgaattttttgtatttgacattctcttttctct-tcttaagATTGATGCCATGAAGCTTGAATTGGAGAAATTTTATGGGAAGAACCCTATAGAGTCGAAAGATATGTCACGTATCGTAAACTCGAATCACTTTGATCGCT
    |||   ||    |  |    ||||| || | |     ||  | | |||    ||   ||   ||| | |  || | |||||| | |||  ||||||||||||||||||||| ||||||||  | || || |||||| |||| ||||| || ||||| || |||||| ||||||
gtaataagttttttccaagtgttgttagaatcctaaatttgttggtttgtttagtgtttggttccttctatttctagGTGGATGCCCTAAAGACTGAATTGGAGAAATTTTATGGAAAGAACCCATTGGAATCAAAAGATTTGTCCCGTATTGTGAACTCCAACCACTTTAATCGCT

upper sequence: AT1G44170.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA02G26390.1 (Glycine max), 3'ss of exon 6
gtaacgt-taagaacttaag----attagattcttgatgaattttttgtatttgacattctcttttctct-tcttaagATTGATGCCATGAAGCTTGAATTGGAGAAATTTTATGGGAAGAACCCTATAGAGTCGAAAGATATGTCACGTATCGTAAACTCGAATCACTTTGATCGCT
||||    |     | ||||    |||||| |  | |     ||  | | ||     ||   ||   ||| | |  || | |||||  | |||  ||||||||||||||||||||| ||||||||  | || || |||||| |||| ||| | || ||||| || |||||| |||| |
gtaataaattttttcctaagtgttattagaattctaaatttgttggtttgttcagtgtttgtttccttctatttctagGTGGATGCGCTAAAGACTGAATTGGAGAAATTTTATGGAAAGAACCCATTGGAATCAAAAGATTTGTCCCGTGTTGTGAACTCCAACCACTTTAATCGGT
















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|124897963|gb|EH974177.1|EH974177
EST:     GCGTTTCGCCGGACTATATCTTGACGACAAAAGAATATGCTCCTAAATTG                         ATTGATGCCATGAAGCTTGAATTGGAGAAATTTTATGGGAAG
genomic: GCGTTTCGCCGGACTATATCTTGACGACAAAAGAATATGCTCCTAAATTGgtaacgttaa ... tcttcttaagATTGATGCCATGAAGCTTGAATTGGAGAAATTTTATGGGAAG
EST: gi|116465911|gb|EG508503.1|EG508503
EST:     GCGTTTCGCCGGACTATATCTTGACGACAAAAGAATATGCTCCTAAATTG                         ATTGATGCCATGAAGCTTGAATTGGAGAAATTTTATGGGAAGAACCCTATA
genomic: GCGTTTCGCCGGACTATATCTTGACGACAAAAGAATATGCTCCTAAATTGgtaacgttaa ... tcttcttaagATTGATGCCATGAAGCTTGAATTGGAGAAATTTTATGGGAAGAACCCTATA
EST: gi|86029395|gb|DR325148.1|DR325148
EST:     AGAATATGCTCCTAAATTG                         ATTGATGCCATGAAGCTTGAATTGGAGAAATTTTATGGGAAGAACCCTATA
genomic: AGAATATGCTCCTAAATTGgtaacgttaa ... tcttcttaagATTGATGCCATGAAGCTTGAATTGGAGAAATTTTATGGGAAGAACCCTATA
EST: gi|116465913|gb|EG508505.1|EG508505
EST:     GCGTTTCGCCGGACTATATCTTGACGACAAAAGAATATGCTCCTAAATTG                         ATTGATGCCATGAAGCTTGAATTGGAGAAATTTTATGGGAAGAACCCTATA
genomic: GCGTTTCGCCGGACTATATCTTGACGACAAAAGAATATGCTCCTAAATTGgtaacgttaa ... tcttcttaagATTGATGCCATGAAGCTTGAATTGGAGAAATTTTATGGGAAGAACCCTATA
EST: gi|116465916|gb|EG508508.1|EG508508
EST:     GCGTTTCGCCGGACTATATCTTGACGACAAAAGAATATGCTCCTAAATTG                         ATTGATGCCATGAAGCTTGAATTGGAGAAATTTTATGGGAAGAACCCTATA
genomic: GCGTTTCGCCGGACTATATCTTGACGACAAAAGAATATGCTCCTAAATTGgtaacgttaa ... tcttcttaagATTGATGCCATGAAGCTTGAATTGGAGAAATTTTATGGGAAGAACCCTATA
EST: gi|124785435|gb|EH875114.1|EH875114
EST:     CGTTTCGCCGGACTATATTCTTGACGACAAAAGAATATGCTCCTAAATTG                         ATTGATGCCATGAAGCTTGAATTGGAGAAATTTTATGGGAAG
genomic: CGTTTCGCCGGACTATA-TCTTGACGACAAAAGAATATGCTCCTAAATTGgtaacgttaa ... tcttcttaagATTGATGCCATGAAGCTTGAATTGGAGAAATTTTATGGGAAG
EST: gi|116465923|gb|EG508515.1|EG508515
EST:     GCGTTTCGCCGGACTATATCTTGACGACAAAAGAATATGCTCCTAAATTG                         ATTGATGCCATGAAGCTTGAATTGGAGAAATTTTATGGGAAGAACCCTATA
genomic: GCGTTTCGCCGGACTATATCTTGACGACAAAAGAATATGCTCCTAAATTGgtaacgttaa ... tcttcttaagATTGATGCCATGAAGCTTGAATTGGAGAAATTTTATGGGAAGAACCCTATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agattagattcttgatgaattttttgtatttgacattctcttttctcttcttaagATTGATGCCATGAAGCTTGAATTGGAGAAATTTTATGGGAAGAACCCTATAGAGTCGAAAGATATGTCACGTATCGTAAACTCGAATCACTTTGATCGCT
                           atttgac  putative branch site (score: 4)
                            tttgacattctctttt  CT-rich tract
              atgaattttttgtatt  TA-rich tract