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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgatctcaagcattgtgatcatatatacttgtaacatgggtgttaatcggtctgatgattcatacctctctcatcattgatgccagTACGAGCCTGAGCTATTTCCAGGATTGATATATAGGATGAAACTTCCAAAGATTGTACTGCTTATTTTTGTGTCAGGAAAGATTGTTATAACTGGAGCCA

Basic information

species Arabidopsis thaliana
transcript AT1G55520.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G55520.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os03g45410.1 (Oryza sativa), 3'ss of exon 7
gtaagt-gatctcaagcattgtgatcatatatacttgtaacatgggtgttaatcggtctgatgattcatacctctctcatcattgatgccagTACGAGCCTGAGCTATTTCCAGGATTGATATATAGGATGAAACTTCCAAAGATTGTACTGCTTATTTTTGTGTCAGGAAAGATTGTTATAACTGGAGCCA
|||||| ||   |  ||||     |     |  | | | ||||  ||  |  | | ||| |||     | ||| |    | |       ||||| ||||| || || ||||| ||  |||||||| ||||||| |  ||||||||||| || || |||||||| ||||| ||||||||| | || ||||| |
gtaagttgagtccttgcatgcctttttaggacgcctttcacatttgttatg-ttgttcttatgtcctgtgccttttgtgttaa------cagTATGAGCCAGAACTCTTTCCTGGTCTGATATATCGGATGAAGCAACCAAAGATTGTTCTTCTGATTTTTGTTTCAGGCAAGATTGTTTTGACCGGAGCAA

upper sequence: AT1G55520.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv06s0004g00180.t01 (Vitis vinifera), 3'ss of exon 7
---------gtaagtgatctcaagcattgtgatcatatatacttgtaacatgggtgttaatcggtctgatgattc---atacctctctcatcattgatgccagTACGAGCCTGAGCTATTTCCAGGATTGATATATAGGATGAAACTTCCAAAGATTGTACTGCTTATTTTTGTGTCAGGAAAGATTGTTATAACTGGAGCCA
          | | | || | ||  |     ||||| || |  |      ||     || |  | || ||  |     |||    |   ||  |    | ||||| || || ||  | || || || ||||| ||| | |||||||  ||||||||||| |||||||| ||||||||||| || |||||| | |||||||| |
aaatttaaattgaatcattttaaaaa---aaatcatgtaaatgttgtctgtgttctctactgtgccttattgtattgaatatagtttggattttgttgggcagTATGAACCAGAATTGTTCCCTGGCTTGATCTATCGAATGAAACAACCAAAGATTGTGCTGCTTATCTTTGTGTCAGGGAAAATTGTTCTCACTGGAGCTA

upper sequence: AT1G55520.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: PP1S246_34V6.1 (Physcomitrella patens), 3'ss of exon 6
-----gtaagtgatctcaagcattgtgatcatatatacttgtaacatg----ggtgttaatcggtctgatgattcat-acctctctcatcattgatgccagTACGAGCCTGAGCTATTTCCAGGATTGATATATAGGATGAAACTTCCAAAGATTGTACTGCTTATTTTTGTGTCAGGAAAGATTGTTATAACTGGAGCCA
      |||    |  |||     |      ||  | | |  |  ||      |   | || ||| |  |||  ||| | || |    ||| || |  ||||| || || ||| | || ||||| ||||||||||| ||||| |  || ||||||||| ||||||| || ||||| |||||||||||  | ||||| || |
agaatttaaaatgttacaaaatgagctgctttaagtgcctaaactatctttcagatcttattggtgtt-tgacccatgaactgttggttcactgtttgcagTATGAACCAGAGTTGTTCCCAGGGTTGATATATAGAATGAAGCAGCCCAAGATTGTATTGCTTATCTTCGTGTCTGGAAAGATTGTCCTTACTGGTGCTA

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|47831853|gb|CK121537.1|CK121537
EST:     TCCCCATTAGGCTTGAAGGTCTTGCATACTCTCATAGTGCTTTCTCAAGT                         TACGAGCCTGAGCTATTTCCAGGATTGATATATAGGATGAAACTTCCAAAG
genomic: TCCCCATTAGGCTTGAAGGTCTTGCATACTCTCATAGTGCTTTCTCAAGTgtaagtgatc ... ttgatgccagTACGAGCCTGAGCTATTTCCAGGATTGATATATAGGATGAAACTTCCAAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taacatgggtgttaatcggtctgatgattcatacctctctcatcattgatgccagTACGAGCCTGAGCTATTTCCAGGATTGATATATAGGATGAAACTTCCAAAGATTGTACTGCTTATTTTTGTGTCAGGAAAGATTGTTATAACTGGAGCCA
                                 cctctctcatcatt  CT-rich tract
         tgttaat  TA-rich tract