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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taattttctgagttttttttggaggaactctttgatcaatggcttgatctggattttaaccgctttttaattcatgtatttctttgatgtgtacatgtagGTTGCCAAGGATCCATCAGGCAAAGCAGTGAACGCTCTTGAGCAACACATCAAGAACCTTCTCTGCCCATCGTCTCCCTTTTTCTTCAACACCTTGTATG

Basic information

species Arabidopsis thaliana
transcript AT5G15650.1
intron # 1
splice site 3'
intron type U2

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|164026019|gb|ES155122.1|ES155122
EST:     CCATTGATGACGATTGCTTC                         GTTGCCAAGGATCCATCAGGCAAAGCAGTGAACGCTCTTGAGCAACACATC
genomic: CCATTGATGACGATTGCTTCgtaagttact ... gtacatgtagGTTGCCAAGGATCCATCAGGCAAAGCAGTGAACGCTCTTGAGCAACACATC
EST: gi|47832220|gb|CK121904.1|CK121904
EST:     ACATGGTGTCTAAGAAGAAGTATATCTTCACCATTGATGACGATTGCTTC                         GTTGCCAAGGATCCATCAGGCAAAGCAGTGAACGCTCTTGAGCAACACATC
genomic: ACATGGTGTCTAAGAAGAAGTATATCTTCACCATTGATGACGATTGCTTCgtaagttact ... gtacatgtagGTTGCCAAGGATCCATCAGGCAAAGCAGTGAACGCTCTTGAGCAACACATC
EST: gi|164173634|gb|ES115151.1|ES115151
EST:     ACATGGTGTCTAAGAAGAAGTATATCTTCACCATTGATGACGATTGCTTC                         GTTGCCAAGGATC
genomic: ACATGGTGTCTAAGAAGAAGTATATCTTCACCATTGATGACGATTGCTTCgtaagttact ... gtacatgtagGTTGCCAAGGATC
EST: gi|86059347|gb|DR355104.1|DR355104
EST:     ACATGGTGTCTAAGAAGAAGTATATCTTCACCATTGATGACGATTGCTTC                         GTTGCCAAGGATCCATCAGGCAAAGCAGTGAACGCTCTTGAGCAACACATC
genomic: ACATGGTGTCTAAGAAGAAGTATATCTTCACCATTGATGACGATTGCTTCgtaagttact ... gtacatgtagGTTGCCAAGGATCCATCAGGCAAAGCAGTGAACGCTCTTGAGCAACACATC
EST: gi|301501222|gb|HO206762.1|HO206762
EST:     ACATGGTGTCTAAGAAGAAGTATATCTTCACCATTGATGACGATTGCTTC                         GTTGCCAAGGATCCATCAGGCAAAGCAGTGAACGCTCTTGAGCAACACATC
genomic: ACATGGTGTCTAAGAAGAAGTATATCTTCACCATTGATGACGATTGCTTCgtaagttact ... gtacatgtagGTTGCCAAGGATCCATCAGGCAAAGCAGTGAACGCTCTTGAGCAACACATC
EST: gi|11118334|gb|AB050560.1|AB050560
EST:     ACATGGTGTCTAAGAAGAAGTATATCTTCACCATTGATGACGATTGCTTC                         GTTGCCAAGGATCCATCAGGCAAAGCAGTGAACGCTCTTGAGCAACACATC
genomic: ACATGGTGTCTAAGAAGAAGTATATCTTCACCATTGATGACGATTGCTTCgtaagttact ... gtacatgtagGTTGCCAAGGATCCATCAGGCAAAGCAGTGAACGCTCTTGAGCAACACATC
EST: gi|124801039|gb|EH890562.1|EH890562
EST:     TGACGATTGCTTC                         GTTGCCAAGGATCCATCAGGCAAAGCAGTGAACGCT
genomic: TGACGATTGCTTCgtaagttact ... gtacatgtagGTTGCCAAGGATCCATCAGGCAAAGCAGTGAACGCT
EST: gi|47829311|gb|CK118995.1|CK118995
EST:     ACATGGTGTCTAAGAAGAAGTATATCTTCACCATTGATGACGATTGCTTC                         GTTGCCAAGGATCCATCAGGCAAAGCAGTGAACGCTCTTGAGCAACACATC
genomic: ACATGGTGTCTAAGAAGAAGTATATCTTCACCATTGATGACGATTGCTTCgtaagttact ... gtacatgtagGTTGCCAAGGATCCATCAGGCAAAGCAGTGAACGCTCTTGAGCAACACATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatctggattttaaccgctttttaattcatgtatttctttgatgtgtacatgtagGTTGCCAAGGATCCATCAGGCAAAGCAGTGAACGCTCTTGAGCAACACATCAAGAACCTTCTCTGCCCATCGTCTCCCTTTTTCTTCAACACCTTGTATG
                  tttttaattcatgtat  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taattttctgagttttttttggaggaactctttgatcaatggcttgatctggattttaaccgctttttaattcatgtatttctttgatgtgtacatgtagGTTGCCAAGGATCCATCAGGCAAAGCAGTGAACGCTCTTGAGCAACACATCAAGAACCTTCTCTGCCCATCGTCTCCCTTTTTCTTCAACACCTTGTATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - -tttttgg
- - - - - - - - - - - - - -ctctttg