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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCTTTGGACGGGGCGGCGAAGAAATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAGgtaatgtttgtttgttatcatgctgtacattcatcattctactccagtttacgcatatgattgtggcctcttgtgatctcgtgctgctgaaactttattttatcgaagtttgcgattatgattgcag

Basic information

species Arabidopsis thaliana
transcript AT5G40850.1
intron # 4
splice site 5'
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|125221691|gb|EL235776.1|EL235776
EST:     GAAATTGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAG                         GGATAACTGCGGCGTCGGGGATAGCAGCAG
genomic: GAAA-TGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAGgtaatgtttg ... atgattgcagGGATAACTGCGGCGTCGGGGATAGCAGCAG
EST: gi|125217750|gb|EL231833.1|EL231833
EST:     GACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAG                         GGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGGGATTCCACTAACA
genomic: GACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAGgtaatgtttg ... atgattgcagGGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGGGATTCCACTAACA
EST: gi|164133698|gb|ES189966.1|ES189966
EST:     AATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAG                         GGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGGGATTCCACTAACAC
genomic: AATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAGgtaatgtttg ... atgattgcagGGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGGGATTCCACTAACAC
EST: gi|124772827|gb|EH862956.1|EH862956
EST:     GAAATGGACTTTCTGCAACAGCAAGGGATTTCGAGTTCAAGTTATACCAG                         GGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGGGATTCCACTAACA
genomic: GAAATGGACTTTCTGCAACAGCAAGGGA-TTCGAGTTCAAGTTATACCAGgtaatgtttg ... atgattgcagGGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGGGATTCCACTAACA
EST: gi|125307007|gb|EL321092.1|EL321092
EST:     AGAAATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAG                         GGATAACTGCGGCGTCGGGG
genomic: AGAAATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAGgtaatgtttg ... atgattgcagGGATAACTGCGGCGTCGGGG
EST: gi|124731413|gb|EH822815.1|EH822815
EST:     TGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAG                         GGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGGGATTCCACTAACAC
genomic: TGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAGgtaatgtttg ... atgattgcagGGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGGGATTCCACTAACAC
EST: gi|125316863|gb|EL330948.1|EL330948
EST:     AAATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAG                         GGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGGGATTCCACTAACAC
genomic: AAATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAGgtaatgtttg ... atgattgcagGGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGGGATTCCACTAACAC
EST: gi|116459489|gb|EG502081.1|EG502081
EST:     AGAAATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAG                         GGATAACTGCGGCGTCGGGGATA
genomic: AGAAATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAGgtaatgtttg ... atgattgcagGGATAACTGCGGCGTCGGGGATA
EST: gi|125004154|gb|EL076423.1|EL076423
EST:     GAAATGGACTTTCTTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAG                         GGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGG
genomic: GAAATGGACTTTC-TGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAGgtaatgtttg ... atgattgcagGGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGG
EST: gi|125068746|gb|EL134766.1|EL134766
EST:     CTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAG                         GGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGGGATTCCACTAACAC
genomic: CTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAGgtaatgtttg ... atgattgcagGGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGGGATTCCACTAACAC
EST: gi|125050163|gb|EL122432.1|EL122432
EST:     GAAATGGGCTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAG                         GGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGGGATTCCACTAACAC
genomic: GAAATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAGgtaatgtttg ... atgattgcagGGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGGGATTCCACTAACAC
EST: gi|116459485|gb|EG502077.1|EG502077
EST:     AGAAATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAG                         GGATAACTGCGGCGTCGGGGATA
genomic: AGAAATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAGgtaatgtttg ... atgattgcagGGATAACTGCGGCGTCGGGGATA
EST: gi|86080219|gb|DR375976.1|DR375976
EST:     AGAAATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAG                         GGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGGGATTCCACTAACAC
genomic: AGAAATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAGgtaatgtttg ... atgattgcagGGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGGGATTCCACTAACAC
EST: gi|124908510|gb|EH982590.1|EH982590
EST:     AGAAATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAG                         GGATAACTGCGGCGTCGGGGATAG
genomic: AGAAATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAGgtaatgtttg ... atgattgcagGGATAACTGCGGCGTCGGGGATAG
EST: gi|124887357|gb|EH966259.1|EH966259
EST:     AGAAATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAG                         GGATAACTGCGGCGTCGGGGATAGCAGCAG
genomic: AGAAATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAGgtaatgtttg ... atgattgcagGGATAACTGCGGCGTCGGGGATAGCAGCAG
EST: gi|124915745|gb|EH989619.1|EH989619
EST:     AGAAATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAG                         GGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGGGATTCCACTAA
genomic: AGAAATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAGgtaatgtttg ... atgattgcagGGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGGGATTCCACTAA

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCTTTGGACGGGGCGGCGAAGAAATGGACTTTCTGCAACAGCAAGGGATTCGAGTTCAAGTTATACCAGgtaatgtttgtttgttatcatgctgtacattcatcattctactccagtttacgcatatgattgtggcctcttgtgatctcgtgctgctgaaactttattttatcgaagtttgcgattatgattgcag

- - - - - - - - - - - - - - - - - - - - AGCAAG