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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCTATGGTTAATTGCATTACATTGAATTCAACAAGCAGAGTAGCACTAACAAGCTCCCGTAATGCGTTTAGCATGgttagttctttccctttagtgttatttaggctctttaaaatgcctctttaggtttatatgtaacatttccatcgactgtttattcag

Basic information

species Arabidopsis thaliana
transcript AT2G44280.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G44280.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv13s0156g00080.t01 (Vitis vinifera), 5'ss of exon 6
GGCTATGGTTAATTGCATTACATTGAATTCAACAAGCAGAGTAGCACTAACAAGCTCCCGTAATGCGTTTAGCATGgttagttctttccct----ttagtgttatttaggctctttaaaatgcctctttaggtttatatgtaacatttccatcgactgtttattcag----------------
| ||||||| |||||||| ||  |||||||||||||||||||||  ||  | ||||  |||||||| ||||  ||||||||  | |  |      ||  | |||  ||   | ||  ||||      | |  | |||      |  ||    |   |  |||||||                 
GTCTATGGTGAATTGCATCACGCTGAATTCAACAAGCAGAGTAGTTCTTGCTAGCTGTCGTAATGCTTTTACAATGgttagcacctctctgcatattgattttacatatagttttctaaatcatcactcatctctatggagtgctattgaggcagtttgttattcatttaaatgatcttaaag
















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|116399887|gb|EG442479.1|EG442479
EST:     ATTCAACAAGCAGAGTAGCACTAACAAGCTCCCGTAATGCGTTTAGCATG                         GTTGCTAATTTAGGCTTATACGCTATTGTTTTAGTTGTATTTGGTGTTAGC
genomic: ATTCAACAAGCAGAGTAGCACTAACAAGCTCCCGTAATGCGTTTAGCATGgttagttctt ... gtttattcagGTTGCTAATTTAGGCTTATACGCTATTGCTTTAGTTGTATTTGGTGTTAGC
EST: gi|116400316|gb|EG442908.1|EG442908
EST:     ATTCAACAAGCAGAGTAGCACTAACAAGCTCCCGTAATGCGTTTAGCATG                         GTTGCTAATTTAGGCTTATACGCTATTGCTTTAGTTGTATTTGGTGTTAGC
genomic: ATTCAACAAGCAGAGTAGCACTAACAAGCTCCCGTAATGCGTTTAGCATGgttagttctt ... gtttattcagGTTGCTAATTTAGGCTTATACGCTATTGCTTTAGTTGTATTTGGTGTTAGC
EST: gi|116399884|gb|EG442476.1|EG442476
EST:     ATTCAACAAGCAGAGTAGCACTAACAAGCTCCCGTAATGCGTTTAGCATG                         GTTGCTAATTTAGGCTTATACGCTATTGCTTTAGTTGTATTTGGTGTTAGC
genomic: ATTCAACAAGCAGAGTAGCACTAACAAGCTCCCGTAATGCGTTTAGCATGgttagttctt ... gtttattcagGTTGCTAATTTAGGCTTATACGCTATTGCTTTAGTTGTATTTGGTGTTAGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGCTATGGTTAATTGCATTACATTGAATTCAACAAGCAGAGTAGCACTAACAAGCTCCCGTAATGCGTTTAGCATGgttagttctttccctttagtgttatttaggctctttaaaatgcctctttaggtttatatgtaacatttccatcgactgtttattcag

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