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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagcactctctttcgaggttttctttattttctttgttatttttttttactgaatttactttcaaatttggtttctcttcagTTACCGCAGAATAATCCTGGTTTCAATAATCCACCTTTCAAATTCACAAAATACTCGAATGCATACATGCTTGTTTATATTCGGGAAAGTGACAAGGATA

Basic information

species Arabidopsis thaliana
transcript AT3G11910.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G11910.2 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: LOC_Os12g30540.1 (Oryza sativa), 3'ss of exon 12
---------------------------------gtagcactctc-tttcgaggttttctttattttctttgttatttttttttactgaatttactttcaaatttggtttctct---tcagTTACCGCAGAATAATCCTGGTTTCAATAATCCACCTTTCAAATTCACAAAATACTCGAATGCATACATGCTTGTTTATATTCGGGAAAGTGACAAGGATA
                                 | |   | ||  ||| | ||||      |||| | |  |  | | ||| |       |    ||    | |  |||   |    ||||| || || |  || ||||||||||||||  | || || ||||||||||| || |||||||| ||||||||||| |||||||| || || ||||||||||
gtcgtttttactattaataactgttcattaagtgcaattcactgatttagtggttgcagcaatttccctcatcttgtatttatgtcatcatcttatttgtttctcttttggatggaacagTTGCCTCAAATAAACCCTGGTTTCAATAACACCCCATTTAAATTCACAAAGTATTCGAATGCCTACATGCTTGTCTATATTCGTGAGAGCGACAAGGATA

upper sequence: AT3G11910.2 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GRMZM2G014805_T01 (Zea mays), 3'ss of exon 12
gtagcactctctttcgaggttttctttattttct-ttgttatttt----tttttactgaattt--actt-----tcaaatttggtttctctt------cagTTACCGCAGAATAATCCTGGTTTCAATAATCCACCTTTCAAATTCACAAAATACTCGAATGCATACATGCTTGTTTATATTCGGGAAAGTGACAAGGATA
|||  | ||| | |     ||   |  ||    |   |||| ||      || ||   | |||  ||||     | || | |  ||  |  |      ||||| || || |  || ||||||||||||||  |||| |||||||||||||| || || ||||| ||||||||||| ||||| || || | |||||||||||
gtaaaattctttataacaattcattcaatacaatacagttacttgaggacttgtataaattttccacttattgcttaactcttattctttgtatggaacagTTGCCTCAAATAAACCCTGGTTTCAATAACACACCATTCAAATTCACAAAGTATTCAAATGCCTACATGCTTGTCTATATACGTGAGAATGACAAGGATA

upper sequence: AT3G11910.2 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GRMZM2G303655_T01 (Zea mays), 3'ss of exon 2
gtagcactctcttt--cgaggttttctttattttctttgttatttttttttactgaatttactttcaaatttggtttctctt---cagTTACCGCAGAATAATCCTGGTTTCAATAATCCACCTTTCAAATTCACAAAATACTCGAATGCATACATGCTTGTTTATATTCGGGAAAGTGACAAGGATA
||| || ||| | |  | |   ||  || | |    |  ||      || || | | ||| || | |  | |  ||| | |    ||||| || || |  || ||||||||||||||  | || || ||||||||||| || |||||||| ||||||||||| ||||| || || |||||||| || |
gtaacattctttatgacaaatgttcattcaatacaatacttgcggacttgtattaactttcctcttatttcttctttgtatggaacagTTGCCTCAAATAAACCCTGGTTTCAATAACACGCCATTTAAATTCACAAAGTATTCGAATGCCTACATGCTTGTCTATATACGTGAGAGTGACAAAGAGA

upper sequence: AT3G11910.2 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GRMZM2G071441_T02 (Zea mays), 3'ss of exon 8
gtagcactctctttcgaggttttctttattttctttgttatttttttttactgaatttact--ttcaaatttggtttctcttcagTTACCGCAGAATAATCCTGGTTTCAATAATCCACCTTTCAAATTCACAAAATACTCGAATGCATACATGCTTGTTTATATTCGGGAAAGTGACAAGGATA
                     |  |  ||        | |  || ||  | |   ||   |   | | ||||   ||   | ||| | ||||| |  || ||||| ||  ||| | ||||  | | ||| || ||  | || ||||| |||||||||||||| ||||| ||||||||||| ||||
--------------------gtaatacatgcagacactaaacttcttcaattagcttgggtacataacatttatctttgttgcagCTCCCGCATACCAACCCTGGGTTGGATACTGCACCGCTTAGATTTACCAAGCATTCAAATGCTTACATGCTTGTTTACATTCGAGAAAGTGACAAAGATA

upper sequence: AT3G11910.2 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 12
gtagcactctctttcgaggttttctttatttt-----ctttgttattt-----ttttttactgaatttactttcaaatttggtttctctt---cagTTACCGCAGAATAATCCTGGTTTCAATAATCCACCTTTCAAATTCACAAAATACTCGAATGCATACATGCTTGTTTATATTCGGGAAAGTGACAAGGATA
   |||     || | ||  |||||||| |       |||| || ||      || | ||||||  |   |  |   |   | || | |    ||||| || ||||  || ||||| ||||| ||  | || || |||||||| |||||||| ||||||||||||||||| ||||| || |||||||||||||| |
---gcatgtctttaccagtgtttctttactccgtcaactttattcttgggtaattgtgtactgatctggttaccttctcctgcttgtatgaaacagTTGCCACAGACAAACCCTGGATTCAACAACACTCCATTTAAATTCACGAAATACTCAAATGCATACATGCTTGTGTATATACGTGAAAGTGACAAGGAGA

upper sequence: AT3G11910.2 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: EFJ13603 (Selaginella moellendorffii), 3'ss of exon 11
gtagcactctctttcgaggttttctttattttctttgttatttttttttactgaatttactttcaaatttggtttctcttcagTTACCGCAGAATAATCCTGGTTTCAATAATCCACCTTTCAAATTCACAAAATACTCGAATGCATACATGCTTGTTTATATTCGGGAAAGTGACAAGGATA
                                  |    || |  ||  |||   ||   |  |  ||| | |||   | ||||| || ||||  ||||| || || || || || ||||||||||| || || ||||| ||||||||||||||||| |||||  | || || || ||||| |
---------------------------------gtaagcatgtcattaaactagtttcggtgacttatt-gtttttcttacagTTGCCACAGACCAATCCCGGATTTAACAACCCTCCTTTCAAATTTACGAAGTACTCCAATGCATACATGCTTGTATATATCAGAGAGAGCGATAAGGACA

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|125236615|gb|EL250700.1|EL250700
EST:     CAATATGGTGGTGAAGAAGAG                         TTACCGCAGGATAATCCTGGTTTCAATAATCCACCTTTCAAATTCACAAAA
genomic: CAATATGGTGGTGAAGAAGAGgtagcactct ... ttctcttcagTTACCGCAGAATAATCCTGGTTTCAATAATCCACCTTTCAAATTCACAAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttctttgttatttttttttactgaatttactttcaaatttggtttctcttcagTTACCGCAGAATAATCCTGGTTTCAATAATCCACCTTTCAAATTCACAAAATACTCGAATGCATACATGCTTGTTTATATTCGGGAAAGTGACAAGGATA
                                       tttggtttctcttc  CT-rich tract
     tttgttattttttttt  TA-rich tract