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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGCAGATAGGCTTTGGTGGTTCCAAGTTTGCACTGAAGTGGCATATTTCCAAGTGGCACCTGCAAACGATAGCATCCGGTCTCATCAAATCAATACAGAgtacacacagtcccaagcttttatccataacttttttcatggtttatatttattgtcctgcttacgtttcttttaatttgatag

Basic information

species Arabidopsis thaliana
transcript AT4G36195.2
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G36195.3 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os10g36780.1 (Oryza sativa), 5'ss of exon 9
GTGCAGATAGGCTTTGGTGGTTCCAAGTTTGCACTGAAGTGGCATATTTCCAAGTGGCACCTGCAAACGATAGCATCCGGTCTCATCAAATCAATACAGAgtacacacagtcccaagcttttat--ccataacttttttcatggtttatatttatt--gtcctgc-ttacgtttcttttaatttgatag---------------
|| |   ||| |||||||||||||||||||||| ||| || || ||||| |||||||||||   |||||||||||| || |||    | |||||||||| |||      |||| | | |||| |  ||||  || | | | |  | | | |   |   | | ||  ||  ||  || || |    || |               
GTTC---TAGACTTTGGTGGTTCCAAGTTTGCAGTGAGGTTGCCTATTTTCAAGTGGCACCCAAAAACGATAGCATTCGCTCTACAGAGATCAATACAGGgtaat----gtcctatgtttttttttccatctctgtatgcttattctttttcagtcaagccttgggttgggtacctgtttaagaaattgtcatgtttcgattac

upper sequence: AT4G36195.3 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os10g36760.1 (Oryza sativa), 5'ss of exon 9
GTGCAGATAGGCTTTGGTGGTTCCAAGTTTGCACTGAAGTGGCATATTTCCAAGTGGCACCTGCAAACGATAGCATCCGGTCTCATCAAATCAATACAGAgt------acacacagtcc-caagcttttatcca---------taacttttttcat-ggtttatatttattgtcc-tgcttacgtttcttttaatttgatag-----------------------------------------------
   || ||||| | ||||||| ||||||||||| |||||| ||||||||||||||||| ||   ||| |||||  |||| |||    | ||  | |||  ||      |   ||  ||| |||     ||| |          || |||   | || | |||| || |  | ||  |  |    | | ||| ||  ||  |                                                
---CATATAGGTTATGGTGGTACCAAGTTTGCAGTGAAGTTGCATATTTCCAAGTGGCTCCAAAAAATGATAGTGTCCGTTCTGCAAAGATTGACACAAGgttactagatctactttcctcaaataaatattccactggaagctatcttaccttatcgatttagatctgctatctataatcttctctttttcaagatgtgactatgcttctagatattgtatttatataagttcctcttttctttctag

upper sequence: AT4G36195.3 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G031572_T02 (Zea mays), 5'ss of exon 8
GTGCAGATAGGCTTTGGTGGTTCCAAGTTTGCACTGAAGTGGCATATTTCCAAGTGGCACCTGCAAACGATAGCATCCGGTCTCATCAAATCAATACAGAgtacacacagtcccaagcttttatccataacttttttcatggtttatatttattgtcctgcttacgtttcttttaatttgatag-----------------
  ||| |||| || ||||||| ||||||||||| ||| || ||||||||||| ||||||||   |||||||||  | || || |   | ||| | ||   ||    | |      | |  | |  | |   | | |  |  |  |||  || |  |  | |||    || ||  || |  | ||                 
TAGCATATAGACTATGGTGGTACCAAGTTTGCAGTGAGGTTGCATATTTCCAGGTGGCACCAAAAAACGATAGTGTTCGTTCCCCAAAGATCGACACGAGgttagtagaaatattatcaatcacacctttttgtctgtagcgagtatcctt-tccttatcctttttcttgttccaaatacaaagctgcactatctcaatct

upper sequence: AT4G36195.3 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G031572_T01 (Zea mays), 5'ss of exon 9
GTGCAGATAGGCTTTGGTGGTTCCAAGTTTGCACTGAAGTGGCATATTTCCAAGTGGCACCTGCAAACGATAGCATCCGGTCTCATCAAATCAATACAGAgtacacacagtcccaagcttttatccataacttttttcatggtttatatttattgtcctgcttacgtttcttttaatttgatag-----------------
   || |||| || ||||||| ||||||||||| ||| || ||||||||||| ||||||||   |||||||||  | || || |   | ||| | ||   ||    | |      | |  | |  | |   | | |  |  |  |||  || |  |  | |||    || ||  || |  | ||                 
---CATATAGACTATGGTGGTACCAAGTTTGCAGTGAGGTTGCATATTTCCAGGTGGCACCAAAAAACGATAGTGTTCGTTCCCCAAAGATCGACACGAGgttagtagaaatattatcaatcacacctttttgtctgtagcgagtatcctt-tccttatcctttttcttgttccaaatacaaagctgcactatctcaatct

upper sequence: AT4G36195.3 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G082502_T02 (Zea mays), 5'ss of exon 8
GTGCAGATAGGCTTTGGTGGTTCCAAGTTTGCACTGAAGTGGCATATTTCCAAGTGGCACCTGCAAACGATAGCATCCGGTCTCATCAAATCAATACAGAgta---cacacagtcccaa-----gcttttatccataacttttttcatggtttatatttattgtcctgcttacgtttctttta-atttgatag-------
|| |   |||||| ||||||||||||||||||| ||| || || || || |||||||||||   ||| || ||| | || |||      ||||||||   |||     | |  |||  |     | | | |      ||     ||  |  || ||| | || |  | ||        |  || |||| || |       
GTTC---TAGGCTCTGGTGGTTCCAAGTTTGCAGTGAGGTTGCCTACTTTCAAGTGGCACCCAAAAATGACAGCGTTCGTTCTGCAAGGATCAATACGAGgtaatgttccctatccttatgtgtgttctgactttcgacacacctcccgagttttatatgttctattactccaaaccgtgctacatttcattggaatagc

upper sequence: AT4G36195.3 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv04s0023g03020.t01 (Vitis vinifera), 5'ss of exon 8
GTGCAGATAGGCTTTGGTGGTTCCAAGTTTGCACTGAAGTGGCATATTTCCAAGTGGCACCTGCAAACGATAGCATCCGGTCTCATCAAATCAATACAGAgtac----------------acacagtcccaagcttttatccat--aacttttttcatggtttatatttattgtcctgcttacgtttcttttaatttgatag----------------------------------------------------------------------
   | ||| || | |||||||||||||||||||||||||| ||||  ||||| ||||||||  || | |||||||| || |||    | || |||||| ||| |                ||    | |  || || ||   |   ||||| |||  |   |||| |  | ||   ||      ||  || | | ||   ||                                                                      
CATCTGATCGGTTGTGGTGGTTCCAAGTTTGCACTGAAGTTGCATTCTTCCAGGTGGCACCCTCAGATGATAGCATGCGCTCTTCAGAGATTAATACAAAgtgcgtcttcgcacctctttacgtgtttcacagtttctacttacccaacttcttttttatattat-taaaatgctatggcatgattatttgtgagttataagtatttggttttgcttactttactcttttgtacatgtatgattatacaaattggttgctcatatgtggcag

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|125060620|gb|EL129297.1|EL129297
EST:     CAAGTGGCACCTGCAAACGATAGCATCCGGTCTCATCAAATCAATACAGA                         GTATCATTTGGATCTATGCAAGAGTCTGTTTGGGAAAG
genomic: CAAGTGGCACCTGCAAACGATAGCATCCGGTCTCATCAAATCAATACAGAgtacacacag ... aatttgatagGTATCATTTGGATCTATGCAAGAGTCTGTTTGGGAAAG
EST: gi|124942398|gb|EL018668.1|EL018668
EST:     CAAGTGGCACCTGCAAACGATAGCATCCGGTCTCATCAAATCAATACAGA                         GTATCATTTGGA
genomic: CAAGTGGCACCTGCAAACGATAGCATCCGGTCTCATCAAATCAATACAGAgtacacacag ... aatttgatagGTATCATTTGGA