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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatatcaactcatgttctctgtttaaagttgcaagctttgtctttggtgtgaaatggttgtagaagatcgagctagttcaggaattactcattacctttcactatcttatggtttttggttttcctttgggaaacagGTTTCAGCTGCTGGATATGATCGTCAGGGTGTGGCAGATCATGCTAATAATCTGGCTACCAAAATACGAAACAATCTGACCAATTCAATGAAGGCAATTG

Basic information

species Arabidopsis thaliana
transcript AT3G16950.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G16950.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os01g23610.1 (Oryza sativa), 3'ss of exon 2
gtaaatatcaactcatgttctctgtttaaagttgcaagctttgtctttggtgtgaaatggttgtagaagatcgagctagttcaggaattactcattacctttcactatcttatggtttttggttttcctttgggaaacagGTTTCAGCTGCTGGATATGATCGTCAGGGTGTGGCAGATCATGCTAATAATCTGGCTACCAAAATACGAAACAATCTGACCAATTCAATGAAGGCAATTG
                             | |  ||| |   |    |  | |    || |  | ||   |  |       || |  ||  | ||  ||  | ||| |  ||      |   || || | |  | ||||||||||| | |||||||||||| | |||| ||| ||||||||||| |||||||||||  | ||||| || | |||  |||| ||||| ||||| ||  | |
-----------------------------aatatcaaaccaagaacctccttt----tgttcatggacctttaactataagcatg--ttttttatggcccctaactttgctaa-----tcatttatcatatttgtaacagGTTTCAACAGCTGGATATGATAGGCAGGCTGTTGCAGATCATGCAAATAATCTGGCCTCTAAAATTCGTAGCAACTTGACTAATTCGATGAAAGCTTTGG
















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|47831000|gb|CK120684.1|CK120684
EST:     GAATGCGGGAACTTCAGAACGAACATCACATGAAGTCCTTTGGTCTCCAG                         GTTTCAGCTGCTGGATATGATCGTCAGGGTGTGGCAGATCATGCTAATAAT
genomic: GAATGCGGGAACTTCAGAACGAACATCACATGAAGTCCTTTGGTCTCCAGgtaaatatca ... tgggaaacagGTTTCAGCTGCTGGATATGATCGTCAGGGTGTGGCAGATCATGCTAATAAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattactcattacctttcactatcttatggtttttggttttcctttgggaaacagGTTTCAGCTGCTGGATATGATCGTCAGGGTGTGGCAGATCATGCTAATAATCTGGCTACCAAAATACGAAACAATCTGACCAATTCAATGAAGGCAATTG
                              tttttggttttccttt  CT-rich tract
                    tatcttat  TA-rich tract