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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGGTGTTGCGCGAGCAATACAGCTGGTGGTTCAAAGGCTAATCGGATCTCACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAGgtatacttgtctccacttggaattgattgacaaacttgtttctatctgtctatatgactttgtagagatgtttattctatgtgtgttgttgttattgtct...

Basic information

species Arabidopsis thaliana
transcript AT5G07910.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G07910.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv17s0000g06940.t01 (Vitis vinifera), 5'ss of exon 1
---GGGGTGTTGCGCGAGCAATACAGCTGGTGGTTCAAAGGCTAATCGGATCTCACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAGgtatacttgtctccacttggaattgattgacaaacttgtttctatctgtctatatgactttgtagagatgtttattctatgtgtgttgttgttattgtct----
   ||| || ||    ||||| |     || | ||| || || | | |||||  ||| |||  ||| ||||||||||||| ||| |||||||| |||||||||| | |    |||    ||   | |  || |   | ||| | | |  |     | ||  | | |||     ||  |||          || |  |  |       
TATGGGTTGCTGTCTCAGCAAGAA---CGGCGATTCCAAAGCCAGTAGGATCGGACGGTGGAAATCCACAGGCATTGTTGCTCTGCGCGACTCTAAATTGAAGgcaaatc--tctatgtttattagtt-ttcattgatttgatgcgaaattggattgtgg-tgtatagtctgtttggttcccgagaaagcgtgggaaaagaagggaa
















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|86040842|gb|DR336597.1|DR336597
EST:     CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAG                         ACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
genomic: CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAGgtatacttgt ... tgttgagtagACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
EST: gi|86040850|gb|DR336605.1|DR336605
EST:     CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAG                         ACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
genomic: CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAGgtatacttgt ... tgttgagtagACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
EST: gi|124994097|gb|EL066366.1|EL066366
EST:     CATTGTTGGTCTCCGCGACTCCAAATTGAAG                         ACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
genomic: CATTGTTGGTCTCCGCGACTCCAAATTGAAGgtatacttgt ... tgttgagtagACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
EST: gi|116482301|gb|EG524893.1|EG524893
EST:     CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAG                         ACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
genomic: CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAGgtatacttgt ... tgttgagtagACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
EST: gi|86040844|gb|DR336599.1|DR336599
EST:     CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAG                         ACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
genomic: CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAGgtatacttgt ... tgttgagtagACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
EST: gi|86040841|gb|DR336596.1|DR336596
EST:     CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAG                         ACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
genomic: CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAGgtatacttgt ... tgttgagtagACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
EST: gi|86040848|gb|DR336603.1|DR336603
EST:     CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAG                         ACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
genomic: CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAGgtatacttgt ... tgttgagtagACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
EST: gi|86040840|gb|DR336595.1|DR336595
EST:     CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAG                         ACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
genomic: CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAGgtatacttgt ... tgttgagtagACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
EST: gi|86040843|gb|DR336598.1|DR336598
EST:     CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAG                         ACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCMGTGCGAACWCTTGAT
genomic: CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAGgtatacttgt ... tgttgagtagACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
EST: gi|86040847|gb|DR336602.1|DR336602
EST:     CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAG                         ACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
genomic: CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAGgtatacttgt ... tgttgagtagACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
EST: gi|86059031|gb|DR354788.1|DR354788
EST:     CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAG                         ACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
genomic: CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAGgtatacttgt ... tgttgagtagACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
EST: gi|86040849|gb|DR336604.1|DR336604
EST:     CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAG                         ACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
genomic: CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAGgtatacttgt ... tgttgagtagACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
EST: gi|86040851|gb|DR336606.1|DR336606
EST:     CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAG                         ACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT
genomic: CACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAGgtatacttgt ... tgttgagtagACATTTCCTGATGAAGTGATTGAAATGGAGAGAGCAGTGCGAACACTTGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGGGTGTTGCGCGAGCAATACAGCTGGTGGTTCAAAGGCTAATCGGATCTCACGCTGGCGATCTACAGGCATTGTTGGTCTCCGCGACTCCAAATTGAAGgtatacttgtctccacttggaattgattgacaaacttgtttctatctgtctatatgactttgtagagatgtttattctatgtgtgttgttgttattgtct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG