Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTTCCATGGCGTCGGAAGCGAGGGAATCACCAGCAAACAATCCTGGCTTGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcctctgcctctatttgcgatttggttgatcatgacctgtaatctccgtatcgaaatcggaagttatatgtcttggggttcttaaggtgaagg...

Basic information

species Arabidopsis thaliana
transcript AT1G08110.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G08110.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv06s0061g00460.t01 (Vitis vinifera), 5'ss of exon 2
GTTTTCCATGGCGTCGGAAGCGAGGGAATCACCAGCAAACAATCCTGGCTTGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcctctgcctctatttgcgatttggttgatcatgacctgtaatctccgtatcgaaatcggaagttatatgtcttggggttcttaaggtgaagg
|   || ||||| || ||| | | |||||| ||  | |||||||| ||| |     | |  |  |||||||| || ||||||||| |||||||||||||||||   |  ||||   | ||| |    | | |||    |     || | |     |||     |      | || |   ||    || |||| |  |   
GGCGTCAATGGCTTCTGAACCCAAGGAATCTCCCTCTAACAATCCGGGCCTCCATTCCAGCCCTGATGAGGCCACTAAAGGATACTTCATGCAACAGACTgtaccctctctctctatttatattttctgtagttatgtagctgttgaagttgatttattttgttttcttttaatttaattta--atttttaatggcag--
















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|86058486|gb|DR354243.1|DR354243
EST:     TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACT                         ATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
genomic: TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcc ... taactctcagATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
EST: gi|86058484|gb|DR354241.1|DR354241
EST:     TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACT                         ATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
genomic: TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcc ... taactctcagATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
EST: gi|86058487|gb|DR354244.1|DR354244
EST:     TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACT                         ATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
genomic: TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcc ... taactctcagATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
EST: gi|86042017|gb|DR337772.1|DR337772
EST:     TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACT                         ATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
genomic: TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcc ... taactctcagATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
EST: gi|86058483|gb|DR354240.1|DR354240
EST:     TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACT                         ATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
genomic: TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcc ... taactctcagATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
EST: gi|86042021|gb|DR337776.1|DR337776
EST:     TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACT                         ATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
genomic: TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcc ... taactctcagATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
EST: gi|86058480|gb|DR354237.1|DR354237
EST:     TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACT                         ATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
genomic: TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcc ... taactctcagATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
EST: gi|86058481|gb|DR354238.1|DR354238
EST:     TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACT                         ATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
genomic: TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcc ... taactctcagATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
EST: gi|125203116|gb|EL218070.1|EL218070
EST:     CAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACT                         ATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
genomic: CAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcc ... taactctcagATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
EST: gi|86058489|gb|DR354246.1|DR354246
EST:     TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACT                         ATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
genomic: TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcc ... taactctcagATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
EST: gi|86058490|gb|DR354247.1|DR354247
EST:     TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACT                         ATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
genomic: TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcc ... taactctcagATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
EST: gi|301501106|gb|HO206646.1|HO206646
EST:     TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACT                         ATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
genomic: TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcc ... taactctcagATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
EST: gi|152035076|gb|BP843687.2|BP843687
EST:     TGTAAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACT                         ATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
genomic: TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcc ... taactctcagATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
EST: gi|86058479|gb|DR354236.1|DR354236
EST:     TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACT                         ATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
genomic: TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcc ... taactctcagATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
EST: gi|86058488|gb|DR354245.1|DR354245
EST:     TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACT                         ATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
genomic: TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcc ... taactctcagATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
EST: gi|86058485|gb|DR354242.1|DR354242
EST:     TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACT                         ATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
genomic: TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcc ... taactctcagATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
EST: gi|86058491|gb|DR354248.1|DR354248
EST:     TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACT                         ATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
genomic: TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcc ... taactctcagATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
EST: gi|116447688|gb|EG490280.1|EG490280
EST:     TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACT                         ATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG
genomic: TGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcc ... taactctcagATGTTTCGGATCAAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTTTCCATGGCGTCGGAAGCGAGGGAATCACCAGCAAACAATCCTGGCTTGTCAACGAATCGAGATGAGGCTACAAAAGGATACATCATGCAACAGACTgtaagattcctctgcctctatttgcgatttggttgatcatgacctgtaatctccgtatcgaaatcggaagttatatgtcttggggttcttaaggtgaagg

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