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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgatccttccacagctaatcatgttttctttagccttttggattttggaaataatttatgtttccttgccacaactcaattctaccagGCACTTCTTTCTGGATGCTCTGCTGGTGGTGTTTCAACCATACTTCACTGTGACGAGTTCCGTGGATTGTTTAGCGGCAGTACAAACGTGAAGTGCCTTG

Basic information

species Oryza sativa
transcript LOC_Os07g44070.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g44070.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G160569_T03 (Zea mays), 3'ss of exon 1
gtactgatcctt-----ccacagctaatcatgttttctttagccttttggattttggaaataatttatgtttccttgccacaactcaat-tctaccagGCACTTCTTTCTGGATGCTCTGCTGGTGGTGTTTCAACCATACTTCACTGTGACGAGTTCCGTGGATTGTTTAGCGGCAGTACAAACGTGAAGTGCCTTG
||| | |  |||     || |  ||  ||   |  || ||   |||| |  |||  ||  | ||||   | ||| ||   ||| | |   | |||||||| |||||||||||||||||||| ||||||||||| ||||||||||||||||| || |||| ||||||||||  |   | ||| |  || || ||||| |
gtatttacacttaatttcccctactcttctgttactcatttttctttagcttttcagaggtcattttcatgtccctgatgcaatttatcgtataccagGCCCTTCTTTCTGGATGCTCTGCCGGTGGTGTTTCTACCATACTTCACTGTGATGAATTCCATGGATTGTTTCCCTCGAATACCAGAGTCAAATGCCTAG

upper sequence: LOC_Os07g44070.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GLYMA10G28230.1 (Glycine max), 3'ss of exon 5
gtactgatccttccacagctaatcatgttttctttagccttttggattttggaaataatttatgtttccttgccacaactcaattctaccagGCACTTCTTTCTGGATGCTCTGCTGGTGGTGTTTCAACCATACTTCACTGTGACGAGTTCCGTGGATTGTTTAGCGGCAGTACAAACGTGAAGTGCCTTG
     | |     ||||  |   ||  |    |    | | |   || ||     |  | |    ||   | | || | |   ||    ||||| ||||||||||||||||| ||||||||| |  | || ||  | |||||||| || ||| | || || ||       | ||| || |||||||| ||| 
-----gttgtacacacatatgcacacatacattgctacttatataatctt-----tgttctcacgttagatactactattt--ttgcttcagGCTCTTCTTTCTGGATGCTCGGCTGGTGGTTTGGCTACTATTATACACTGTGATGAATTCAGAGGTTTTTTCCCACAGACTACGAAAGTGAAGTGTCTTA

upper sequence: LOC_Os07g44070.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GLYMA02G00930.1 (Glycine max), 3'ss of exon 5
gtactgatccttccacagctaatcatgtt-ttctttagccttttggattttggaaataatttatgtttccttgccacaactcaattctaccagGCACTTCTTTCTGGATGCTCTGCTGGTGGTGTTTCAACCATACTTCACTGTGACGAGTTCCGTGGATTGTTTAGCGGCAGTACAAACGTGAAGTGCCTTG
       |      |   ||  | || || || || || ||||   ||       || | | |||  | ||   ||  |    | | || ||||||||||| |||||||||||||| |||||| |  || | ||| | |||||||| ||||||||  | ||||||        | | || || || ||  |  
------gtttccttatgtctctttatattgtttttcagtctttcatatgc-----atgaatcatgaatgctaatcaacaaatgaatatatcagGCACTTCTCTCTGGATGCTCTGCGGGTGGTCTGGCATCGATAATACACTGTGATGAGTTCCGGAGCTTGTTTCCAAAATCTTCCAAAGTCAAATGTTTGA

upper sequence: LOC_Os07g44070.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GLYMA10G27960.3 (Glycine max), 3'ss of exon 5
gtactgatccttccacagctaatcatgttttctttagccttttggattttggaaataatttatgtttccttgccacaactcaattctaccagGCACTTCTTTCTGGATGCTCTGCTGGTGGTGTTTCAACCATACTTCACTGTGACGAGTTCCGTGGATTGTTTAGCGGCAGTACAAACGTGAAGTGCCTTG
          | | |   ||  | || || | |||     |||    |     ||| ||  ||| |      | |||| | ||    | ||||||||||| |||||||||||||| |||||| |  || ||||| | |||||||| |||||| |  | |||||| |      | | || || || ||  |  
-------gtttcctatgtctctttatattgtgtttcagtctttcatatgcatgaatcatgaatgctaat---caacaaatgaaa---atcagGCACTTCTCTCTGGATGCTCTGCGGGTGGTCTGGCATCCATAATACACTGTGATGAGTTCGGGAGCTTGTTTGGAAAATCTTCCAAAGTTAAATGTTTGA

upper sequence: LOC_Os07g44070.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GLYMA20G22210.1 (Glycine max), 3'ss of exon 5
gtactgatccttccacagctaatcatgttttctttagccttttggattttggaaataatttatgtttccttgccacaactcaattctaccagGCACTTCTTTCTGGATGCTCTGCTGGTGGTGTTTCAACCATACTTCACTGTGACGAGTTCCGTGGATTGTTTAGCGGCAGTACAAACGTGAAGTGCCTTG
           | ||||  ||  ||||  | | || ||   ||  ||  |         | |||||   | || || | |   ||    ||||| ||||||||||||||||| ||||||||| |  | || ||  | |||||||| || ||| | || || ||    |  | ||| || |||||||| ||| 
-------gttgtacacacatatgcatgcatacatt-gctacttatataatcttttgttctcatgttagat-gctactattt--ttgcttcagGCTCTTCTTTCTGGATGCTCGGCTGGTGGTCTGGCTACTATTATACACTGTGATGAATTCAGAGGTTTTTTCCCAGAGACTACCAAAGTGAAGTGTCTTA

upper sequence: LOC_Os07g44070.2 (Oryza sativa), 3'ss of exon 5
lower sequence: AT3G05910.2 (Arabidopsis thaliana), 3'ss of exon 5
------gtactgatccttccacagctaatcatgttttctttagccttttggattttggaaataatttatgtttccttgccacaactcaattctaccagGCACTTCTTTCTGGATGCTCTGCTGGTGGTGTTTCAACCATACTTCACTGTGACGAGTTCCGTGGATTGTTTAGCGGCAGTACAAACGTGAAGTGCCTTG
        ||| | ||||| | |        | | |  |  |     |   ||   ||  |  | |    ||  ||    | |      ||||  ||||||||||| || |||||||||||||||||| |  || | ||  | | ||| || |||||  |    || ||    ||    || || || |||||| |  
gttttgacacttaaccttctataagagtctgtatctcttccatagcataatatcaagggcaggaatggatttaactatttata------ttctgtcagGCACTTCTCTCCGGATGCTCTGCTGGTGGTTTAGCAGCAATCTTGCGCTGCGATGAGTTTAGGAACTTATTCCCTGGATCAACCAAAGTCAAGTGCTTGA

upper sequence: LOC_Os07g44070.2 (Oryza sativa), 3'ss of exon 5
lower sequence: Vv07s0005g02440.t01 (Vitis vinifera), 3'ss of exon 5
gtactgatccttccacagctaatcatgttttct---ttagccttttggattttggaaataatttatgtttccttgccacaactcaattctac-cagGCACTTCTTTCTGGATGCTCTGCTGGTGGTGTTTCAACCATACTTCACTGTGACGAGTTCCGTGGATTGTTTAGCGGCAGTACAAACGTGAAGTGCCTTG
          ||   ||  |   ||| || |||    |   |||||  ||||  ||| |  ||  | ||   ||   ||||   |||      ||||| ||||||||||||||||||||||| ||  |  |  | ||||| || || || |||||  | |  || |||      | |||||| ||||| |||||  
---------gttttgcatttgg-catattctctaagctcatcttttcaattt--gaatttcttgttattctattaagacaaacaaatgtggttcagGCTCTTCTTTCTGGATGCTCTGCTGGGGGACTGGCGTCTATACTACATTGCGATGAGTTTGGCGATTTATTTCCTAAAACTACAAAAGTGAAATGCCTGA

upper sequence: LOC_Os07g44070.2 (Oryza sativa), 3'ss of exon 5
lower sequence: Vv07s0005g02440.t01 (Vitis vinifera), 3'ss of exon 17
gtactgatccttccacagctaatcatgttttct---ttagccttttggattttggaaataatttatgtttccttgccacaactcaattctac-cagGCACTTCTTTCTGGATGCTCTGCTGGTGGTGTTTCAACCATACTTCACTGTGACGAGTTCCGTGGATTGTTTAGCGGCAGTACAAACGTGAAGTGCCTTG
          ||   ||  |   ||| || |||    |   |||||  ||||  ||| |  ||  | ||   ||   ||||   |||      ||||| ||||||||||||||||||||||| ||  |  |  | ||||| || || || |||||  | || || |||   |  | |||||| ||||| |||||  
---------gttttgcatttgg-catattctctaagctcatcttttcaattt--gaacttcttgttattctattaagacaaacaaatgtggttcagGCTCTTCTTTCTGGATGCTCTGCTGGGGGGCTGGCGTCTATACTACATTGCGATGAGTTTGGCGGTTTATTTCCTGAAACTACAAAAGTGAAATGCCTGA

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|5003056|gb|AU068165.1|AU068165
EST:     AGGCTGCTATGGATGATCTGATGGCCCAAGGAATGAGATATGCTAACCAG                         GCACTTCTTTCTGGATGCTCTGCTGGTGGTGNTTCAACCATACTTCACTGT
genomic: AGGCTGCTATGGATGATCTGATGGCCCAAGGAATGAGATATGCTAACCAGgtactgatcc ... attctaccagGCACTTCTTTCTGGATGCTCTGCTGGTGGTGTTTCAACCATACTTCACTGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttttggattttggaaataatttatgtttccttgccacaactcaattctaccagGCACTTCTTTCTGGATGCTCTGCTGGTGGTGTTTCAACCATACTTCACTGTGACGAGTTCCGTGGATTGTTTAGCGGCAGTACAAACGTGAAGTGCCTTG
                                              ttctacc  CT-rich tract
        attttggaaataattt  TA-rich tract