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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGATGCAGCGAGAAAGCTTATGATTATGTCTCTATCAGCGATGCCCGGCAGATGTTGTTGTTCTCTTCTGATCAAGAACTCTTAACCTATGTCACAGATgtaagagaaaaaacattttgtgcaaagtttagaatcttttttagtttcatgaaccattgacgcgatttaggttttatcaaatcttatag

Basic information

species Arabidopsis thaliana
transcript AT1G64520.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G64520.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv02s0025g02010.t01 (Vitis vinifera), 5'ss of exon 5
TGGATGCAGCGAGAAAGCTTATGATTATGTCTCTATCAGCGATGCCCGGCAGATGTTGTTGTTCTCTTCTGATCAAGAACTCTTAACCTATGTCACAGATgtaaga--------gaaaaaacattttgtgcaaagtttagaatcttttttagtttcatgaaccattgacgcgatttaggttttatcaa----atcttatag
||| ||||| || || || || || ||| | || ||||  |||||||| || |||||| ||||||||||||| |||||||| ||    ||| |||  || ||||          |  | |||| | | |  ||| |     || | |  |  |    |   |     | |||  ||    |  || |     || || |  
TGGGTGCAGTGAAAAGGCATACGACTATCTTTCAATCAATGATGCCCGACATATGTTGCTGTTCTCTTCTGACCAAGAACTTTTTGAATATATCAAGGAGgtaaatattgttttgctacaacaatatctttaaattactagatgtctaattatcctttttcctgcaaaagcggctttaaatacattatttgcattttttt-
















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|164224596|gb|EL993610.1|EL993610
EST:     GTTCTCTTCTGATCAAGAACTCTTAACCTATGTCACAGAT                         GAGCATCCCGAGTGGGAAGTGAAGGAAGGGTTTGTTGTCTTCCAGAAAGCC
genomic: GTTCTCTTCTGATCAAGAACTCTTAACCTATGTCACAGATgtaagagaaa ... aatcttatagGAGCATCCTGAGTGGGAAGTGAAGGAAGGGTTTGTTGTCTTCCAGAAAGCC
EST: gi|116478804|gb|EG521396.1|EG521396
EST:     AGATGTTGTTGTTCTCTTCTGATCAAGAACTCTTAACCTATGTCACAGAT                         GAGCATCCTGAGTGGGAAGTGAAGGAAGGGTTTGTTGTCTTCCAGAAAGCC
genomic: AGATGTTGTTGTTCTCTTCTGATCAAGAACTCTTAACCTATGTCACAGATgtaagagaaa ... aatcttatagGAGCATCCTGAGTGGGAAGTGAAGGAAGGGTTTGTTGTCTTCCAGAAAGCC
EST: gi|125213473|gb|EL228305.1|EL228305
EST:     AGATGTTGTTGTTCTCTTCTGATCAAGAACTCTTAACCTATGTCACAGAT                         GAGCATCCTGAGTGGGAAGTGAAGGAAGG
genomic: AGATGTTGTTGTTCTCTTCTGATCAAGAACTCTTAACCTATGTCACAGATgtaagagaaa ... aatcttatagGAGCATCCTGAGTGGGAAGTGAAGGAAGG
EST: gi|86064683|gb|DR360440.1|DR360440
EST:     AGATGTTGTTGTTCTCTTCTGATCAAGAACTCTTAACCTATGTCACAGAT                         GAGCATCCCGAGTGGGAAGTGAAGGAAGGGTTTGTTGTCTTCCANAAAGCC
genomic: AGATGTTGTTGTTCTCTTCTGATCAAGAACTCTTAACCTATGTCACAGATgtaagagaaa ... aatcttatagGAGCATCCTGAGTGGGAAGTGAAGGAAGGGTTTGTTGTCTTCCAGAAAGCC
EST: gi|116446013|gb|EG488605.1|EG488605
EST:     AGATGTTGTTGNNNNNNNCTGATCAAGAACTCTTAACCTATGTCACAGAT                         GAGCATCCTGAGTGGGAAGTGAAGGAAGGGTTTGTTGTCTTCCAGAAAGCC
genomic: AGATGTTGTTGTTCTCTTCTGATCAAGAACTCTTAACCTATGTCACAGATgtaagagaaa ... aatcttatagGAGCATCCTGAGTGGGAAGTGAAGGAAGGGTTTGTTGTCTTCCAGAAAGCC
EST: gi|125071398|gb|EL136460.1|EL136460
EST:     GTTGTTCTCTTCTGATCAAGAACTCTTAACCTATGTCACAGAT                         GAGCATCCTGAGTGGGAAGTGAAGGAAGGGTTTGTTGTCTTCCAGAAAGCC
genomic: GTTGTTCTCTTCTGATCAAGAACTCTTAACCTATGTCACAGATgtaagagaaa ... aatcttatagGAGCATCCTGAGTGGGAAGTGAAGGAAGGGTTTGTTGTCTTCCAGAAAGCC
EST: gi|124778158|gb|EH868101.1|EH868101
EST:     AGATGTTGTTGTTCTCTTCTGATCAAGAACTCTTAACCTATGTCACAGAT                         GAGCATCCTGGGTGGGAAG
genomic: AGATGTTGTTGTTCTCTTCTGATCAAGAACTCTTAACCTATGTCACAGATgtaagagaaa ... aatcttatagGAGCATCCTGAGTGGGAAG
EST: gi|163996987|gb|ES065557.1|ES065557
EST:     AGATGTTGTTGTTCTCTTCTGATCAAGAACTCTTAACCTATGTCACAGAT                         GAGCATCCCGAGTGGGAAGTGAAGGAAGGGTTTGTTGTCTTCCAGAAAGCC
genomic: AGATGTTGTTGTTCTCTTCTGATCAAGAACTCTTAACCTATGTCACAGATgtaagagaaa ... aatcttatagGAGCATCCTGAGTGGGAAGTGAAGGAAGGGTTTGTTGTCTTCCAGAAAGCC
EST: gi|125260032|gb|EL274117.1|EL274117
EST:     AACTCTTAACCTATGTCACAGAT                         GAGCATCCTGAGTGGGAAGTGAAGGAAGGGTTTGTTGTCTTCCAGAAAGCC
genomic: AACTCTTAACCTATGTCACAGATgtaagagaaa ... aatcttatagGAGCATCCTGAGTGGGAAGTGAAGGAAGGGTTTGTTGTCTTCCAGAAAGCC
EST: gi|124893082|gb|EH971984.1|EH971984
EST:     TGTTGTTGTTCTCTTCTGATCAAGAACTCTTAACCTATGTCACAGAT                         GAGCATCCTGAGTGGGAAGTGAAGGAAGGGTTTGTTGTCTTCCAGAAAGCC
genomic: TGTTGTTGTTCTCTTCTGATCAAGAACTCTTAACCTATGTCACAGATgtaagagaaa ... aatcttatagGAGCATCCTGAGTGGGAAGTGAAGGAAGGGTTTGTTGTCTTCCAGAAAGCC
EST: gi|124955091|gb|EL030131.1|EL030131
EST:     GTTGTTCTCTTCTGATCAAGAACTCTTAACCTTATGTCACAGAT                         GAGCATCCTGAGTGGGAAGTGAAGGAAGGGTTTGTTGTCTTCCAGAAAGCC
genomic: GTTGTTCTCTTCTGATCAAGAACTCTTAACC-TATGTCACAGATgtaagagaaa ... aatcttatagGAGCATCCTGAGTGGGAAGTGAAGGAAGGGTTTGTTGTCTTCCAGAAAGCC

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGATGCAGCGAGAAAGCTTATGATTATGTCTCTATCAGCGATGCCCGGCAGATGTTGTTGTTCTCTTCTGATCAAGAACTCTTAACCTATGTCACAGATgtaagagaaaaaacattttgtgcaaagtttagaatcttttttagtttcatgaaccattgacgcgatttaggttttatcaaatcttatag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC