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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgcatgtagacagtagacactaggtgcaaacgctagatatgtcaagataatcctggagattgaaattgaaaaggctaagatatgtttgttcctttgcagATATCTAGATCCATAGGCGACGTGTATCTTAAAAAGGCAGAGTTCAACAAGGAACCATTGTACACAAAGTATAGAATCCGTGAACCGTTCAAAAGACCTA

Basic information

species Arabidopsis thaliana
transcript AT3G51370.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G51370.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA16G23090.2 (Glycine max), 3'ss of exon 3
-------ctgcatgtagacagtagacactaggtgcaaacgctagatatgtcaagataatcctggagattgaaattgaaaaggctaagatatgtttgttcctttgcagATATCTAGATCCATAGGCGACGTGTATCTTAAAAAGGCAGAGTTCAACAAGGAACCATTGTACACAAAGTATAGAATCCGTGAACCGTTCAAAAGACCTA
       ||  |  |   ||    |   ||  ||       |   |   | ||  | ||| || | | |  || | ||     || || || ||| |    | |||||| ||||||||||| ||||| || || || |||||||| || ||||||||||||||||||||  | ||||   |  | || |||   || || || || |
attcaaccttaacttcagcacattaatttacttgtgtctaatcacttgattaaacttatcatgtataatacaactcaa----ttatgaaatttttatg---tggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAGGAACCATTGTATGCTAAGTTCCGTGTGCGGGAAGGTTTTAAGAGGCCCA

upper sequence: AT3G51370.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA16G23090.1 (Glycine max), 3'ss of exon 7
---------------------------------------------------ctgcatgtagacagtagacactaggtgcaa-acgctagatatgtcaagataatcctggagattgaaattg---------aaaaggctaagatatg--tttgttcctttgcagATATCTAGATCCATAGGCGACGTGTATCTTAAAAAGGCAGAGTTCAACAAGGAACCATTGTACACAAAGTATAGAATCCGTGAACCGTTCAAAAGACCTA
                                                   || |  | |   | |  ||  ||  | ||  ||  ||  |   |   |   |  |    |||| || ||          | |   || |  ||||   || ||   | |||||| ||||||||||| ||||| || || || |||||||| || ||||||||||||||||||||  | ||||   |  | || |||   || || || || |
gtaagtaaagcctggtcaagaattgtttccgcaaaggatcaaactcggatactacccgaacg-attcaaccttaacttcagcacattaatttacttgtgtctaatcacttgattaaacttatcatgtataatacaactcaattatgaaatttttatgtggcagATTTCTAGATCCATTGGCGATGTTTACCTAAAAAAGGCTGAATTCAACAAGGAACCATTGTATGCTAAGTTCCGTGTGCGGGAAGGTTTTAAGAGGCCCA

upper sequence: AT3G51370.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA02G05030.1 (Glycine max), 3'ss of exon 3
------------ctgcatgtagacagtagacactaggtgcaaacgctagatatgtcaagataatcctggagattgaaattgaaaaggctaagatatgtttgttcctttgcagATATCTAGATCCATAGGCGACGTGTATCTTAAAAAGGCAGAGTTCAACAAGGAACCATTGTACACAAAGTATAGAATCCGTGAACCGTTCAAAAGACCTA
             |   || ||| |  | |  ||||   |||||  ||      | ||  | ||| || | | |  || | |  |    | || || |||||    | |||||| ||||||||||| ||||| || || || |||||||| || || ||||||||||| |||||  | |||| | |  | || |||   || || || || |
ccaaatttcttcttttttggagaaaaaaaaagctagac-caaacatta----ccttaaacttatcatgtataatacaacttagta----atgaaatttttgtg---tggcagATTTCTAGATCCATTGGCGATGTATACCTAAAAAAGGCTGAATTTAACAAGGAACCGTTGTATGCTAAGTTTCGTGTGCGGGAAGGTTTTAAGAGGCCCA

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|164187328|gb|ES069676.1|ES069676
EST:     ATATTGTCATGTTAAAGCACAATGTGTGGCGTGTTAAGGGCCTTATTCAG                         ATATCTAGATCCATAGGCGACGTGTATCTTAAAAAGGCAGAGTTTCAAC
genomic: ATATTGTCATGTTAAAGCACAATGTGTGGCGTGTTAAGGGCCTTATTCAGgtatgtttct ... tcctttgcagATATCTAGATCCATAGGCGACGTGTATCTTAAAAAGGCAGAGTT-CAAC
EST: gi|125290904|gb|EL304989.1|EL304989
EST:     ATATTGTCATGTTAAAGCACAATGTGTGGCGTGTTAAGGGCCTTATTCAG                         ATATCTAGATCCATAGGCGACGTGTAT
genomic: ATATTGTCATGTTAAAGCACAATGTGTGGCGTGTTAAGGGCCTTATTCAGgtatgtttct ... tcctttgcagATATCTAGATCCATAGGCGACGTGTAT
EST: gi|124717705|gb|EH809107.1|EH809107
EST:     GTGGCGTGTTAAGGGCCTTATTCAG                         ATATCTTAGATCCATAGGCGACGTGTATCTTAAAAAGGCAGAGTTCAACAA
genomic: GTGGCGTGTTAAGGGCCTTATTCAGgtatgtttct ... tcctttgcagATATC-TAGATCCATAGGCGACGTGTATCTTAAAAAGGCAGAGTTCAACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agataatcctggagattgaaattgaaaaggctaagatatgtttgttcctttgcagATATCTAGATCCATAGGCGACGTGTATCTTAAAAAGGCAGAGTTCAACAAGGAACCATTGTACACAAAGTATAGAATCCGTGAACCGTTCAAAAGACCTA
                                        tttgttccttt  CT-rich tract
              attgaaattgaaaa  TA-rich tract