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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCCAGCAGCCAATTCGAGCCTAATTCCGGCTTCTCCGGCGGCGGATTCATGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAGgtaatataatccatcttccatttcgttcaattccaccgattaggctacagatcgaaagtttccgaatcgctaaacgtttctctgtaacaatcgattttggaattgctaaatctgctctgtatatgttttgtgggaatatgcag

Basic information

species Arabidopsis thaliana
transcript AT2G24490.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G24490.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA17G29730.1 (Glycine max), 5'ss of exon 1
CTCCAGCAGCCAATTCGAGCCTAATTCCGGCTTCTCCGGCGGCGGATTCATGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAGgtaatataatccatcttccatttcgttcaattccaccgattaggctacagatcgaaagtttccgaatcgctaaacgtttctctgtaacaatcgattttggaattgctaaatctgctctgtatatgttttgtgggaatatgcag
|||| ||  ||| |||||  | |   ||| ||||||||||||||| |||||||||||||| || |||     | |||| ||||| |||  | |||  ||    ||  ||||  |||  |  |||  |    |   ||| ||   || |  |    ||  ||||  |     |||||  |  |    | |  |    || | |    | | | |                              
CTCCGGCTCCCAGTTCGACGCCACCACCGCCTTCTCCGGCGGCGGTTTCATGTCTTCTCAGCCGTCTACCCTCAACGATTCCTC-TCCCGCGCCGTCAAAAgtatgcaatctttctctctcttctcttttgttttccgttt---ctccgcaaaagaaacttccaga-----aaacgaataac----atagacacacttaggagaatttatttt------------------------------
















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|86033708|gb|DR329461.1|DR329461
EST:     TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAG                         AATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
genomic: TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAGgtaatataat ... gaatatgcagAATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
EST: gi|86033702|gb|DR329455.1|DR329455
EST:     TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAG                         AATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
genomic: TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAGgtaatataat ... gaatatgcagAATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
EST: gi|86033704|gb|DR329457.1|DR329457
EST:     TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAG                         AATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
genomic: TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAGgtaatataat ... gaatatgcagAATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
EST: gi|86033703|gb|DR329456.1|DR329456
EST:     TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAG                         AATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
genomic: TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAGgtaatataat ... gaatatgcagAATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
EST: gi|86033706|gb|DR329459.1|DR329459
EST:     TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAG                         AATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
genomic: TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAGgtaatataat ... gaatatgcagAATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
EST: gi|86033711|gb|DR329464.1|DR329464
EST:     TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAG                         AATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
genomic: TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAGgtaatataat ... gaatatgcagAATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
EST: gi|86033712|gb|DR329465.1|DR329465
EST:     TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAG                         AATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
genomic: TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAGgtaatataat ... gaatatgcagAATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
EST: gi|86033709|gb|DR329462.1|DR329462
EST:     TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAG                         AATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGNGAAGCAAATCACCGAA
genomic: TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAGgtaatataat ... gaatatgcagAATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
EST: gi|86033710|gb|DR329463.1|DR329463
EST:     TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAG                         AATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
genomic: TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAGgtaatataat ... gaatatgcagAATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
EST: gi|86033701|gb|DR329454.1|DR329454
EST:     TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAG                         AATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
genomic: TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAGgtaatataat ... gaatatgcagAATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
EST: gi|86033707|gb|DR329460.1|DR329460
EST:     TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAG                         AATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
genomic: TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAGgtaatataat ... gaatatgcagAATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
EST: gi|19877547|gb|AU238378.1|AU238378
EST:     TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAG                         AATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
genomic: TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAGgtaatataat ... gaatatgcagAATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
EST: gi|86033705|gb|DR329458.1|DR329458
EST:     TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAG                         AATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA
genomic: TGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAGgtaatataat ... gaatatgcagAATCGTGATTTTCAAGGTCTTGTTCCAGTGACGGTGAAGCAAATCACCGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTCCAGCAGCCAATTCGAGCCTAATTCCGGCTTCTCCGGCGGCGGATTCATGTCTTCTCAACCTTCTCAAGCCTACGAATCCTCCTCCTCCACCGCTAAGgtaatataatccatcttccatttcgttcaattccaccgattaggctacagatcgaaagtttccgaatcgctaaacgtttctctgtaacaatcgattttggaattgctaaatctgctctgtatatgttttgtgggaatatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC