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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGTAGATTGGGAGATACAGCACCTGTTGATGCAAACATGCCTCTCCCATCTGACGTAGCAGTGATAATGTATACAAGCGGTAGCACCGGATTGCCTAAGgtttgcccaagcccacctgtttttccagtgttctcattttggaatatctttatgctacaaatttgccttttacttccaggactcatgttggcaattacttcatgatacacataccatgtgaaatatcagttaactgtattttctgcaaataaactaacatatactaaaaatgttttatag

Basic information

species Oryza sativa
transcript LOC_Os12g07110.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g07110.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G118286_T01 (Zea mays), 5'ss of exon 4
AGGTAGATTGGGAGATACAGCACCTGTTGATGCAAACATGCCTCTCCCATCTGACGTAGCAGTGATAATGTATACAAGCGGTAGCACCGGATTGCCTAAGgtttgcccaagcccacctgtttttccagtgttctcattttggaatatctttatgctacaaatttgccttttactt-ccaggactcatgttggcaattacttcatg---atacacataccatgtgaaat---atcagttaactgtattttctgcaaataaactaacatatactaaaaatgttttatag
|  ||| || |||| |  |||||||||||| |||||||||||||| || || || || || ||||||||||| ||||| ||||||||||||||||| |||||||||             ||| | ||   || | |||||    | | | | | |     ||||  |  || ||| | || | ||| ||||| | || ||||      | ||| |||  | | ||| |   ||    ||| | ||| | |||| | | |||| |||| ||    || ||||| ||||
AACTAGGTTAGGAGCTGAAGCACCTGTTGAAGCAAACATGCCTCTACCTTCCGATGTTGCGGTGATAATGTACACAAGTGGTAGCACCGGATTGCCCAAGgtttgc-------------tttatacatccttgttattttttgttgt-tctgtccactgcatttttcccttgcttactagaattcaggttgggagttgcttctcatacacacaaataaaaagcgaagtggaattctctaattatatct-ctgctattgaactgacatgtatcttaattgttt-atag

upper sequence: LOC_Os12g07110.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv18s0001g02810.t01 (Vitis vinifera), 5'ss of exon 5
-AGGTAGATTGGGAGATACAGCACCTGTTGATGCAAACATGCCTCTCCCATCTGACGTAGCAGTGATAATGTATACAAGCGGTAGCACCGGATTGCCTAAGgtttgcccaagcccacctgtttttc-cagtgttctcattttggaatatctttatgctacaaatttgccttttacttccaggactcatgttggcaattacttcatgatacacataccatgtgaaatatcagttaactgtattttctgcaaataaactaacatatactaaaaatgttttatag
   | |  |||| ||| | |   |||||||||||  |  | |||||  || ||||  | ||||| |||||||||||||| || || || ||||||||||||||| |   ||   || ||   ||   |||| |     ||||      |  |  |  |||| |||  ||||    |   | ||  |||  |     |  |||  |||| ||                                                                       
GGAGAAACTTGGCAGAGAGAAT-CCTGTTGATGCGGATTTACCTCTTTCAGCTGATATTGCAGTCATAATGTATACAAGTGGGAGTACTGGATTGCCTAAGgttagtagaaa--catctaccttaggcagtatagattttttac----ttgtggttgtacacattcacctta-gttgatatgatgcattatt----tagctttctgatgcat----------------------------------------------------------------------
















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|29614988|gb|CB620001.1|CB620001
EST:     CTGACGTAGCAGTGATAATGTATACAAGCGGTAGCACCGGATTGCCTAAG                         GGAGTAATGATGACCCATCGGAACGTCCTGGCTACACTTTCAGCAGTTATG
genomic: CTGACGTAGCAGTGATAATGTATACAAGCGGTAGCACCGGATTGCCTAAGgtttgcccaa ... tgttttatagGGAGTAATGATGACCCATCGGAACGTCCTGGCTACACTTTCAGCAGTTATG
EST: gi|29675500|gb|CB671775.1|CB671775
EST:     CTGACGTAGCAGTGATAATGTATACAAGCGGTAGCACCGGATTGCCTAAG                         GGAGTAATGATGACCCATCGGAACGTCCTGGCTACACTTTCAGCAGTTATG
genomic: CTGACGTAGCAGTGATAATGTATACAAGCGGTAGCACCGGATTGCCTAAGgtttgcccaa ... tgttttatagGGAGTAATGATGACCCATCGGAACGTCCTGGCTACACTTTCAGCAGTTATG
EST: gi|86829547|gb|CI286740.1|CI286740
EST:     GTATAC-AGCGGTAGCACCGGATTGCCTAAG                         GGAGTAATGATGACCCATCGGAACGTCCTGGCTACACTTTCAGCAGTTATG
genomic: GTATACAAGCGGTAGCACCGGATTGCCTAAGgtttgcccaa ... tgttttatagGGAGTAATGATGACCCATCGGAACGTCCTGGCTACACTTTCAGCAGTTATG
EST: gi|29672200|gb|CB668475.1|CB668475
EST:     CTGACGTAGCAGTGATAATGTATACAAGCGGTAGCACCGGATTGCCTAAT                         GGAGTAATGATGACCCATCGGAACGTCCTGGCTACACTTTCAGCAGTTATG
genomic: CTGACGTAGCAGTGATAATGTATACAAGCGGTAGCACCGGATTGCCTAAGgtttgcccaa ... tgttttatagGGAGTAATGATGACCCATCGGAACGTCCTGGCTACACTTTCAGCAGTTATG
EST: gi|29672201|gb|CB668476.1|CB668476
EST:     CTGACGTAGCAGTGATAATGTATACAAGCGGTAGCACCGGATTGCCTAAG                         GGAGTAATGATGACCCATCGGAACGTCCTGGCTACACTTTCAGCAGTTATG
genomic: CTGACGTAGCAGTGATAATGTATACAAGCGGTAGCACCGGATTGCCTAAGgtttgcccaa ... tgttttatagGGAGTAATGATGACCCATCGGAACGTCCTGGCTACACTTTCAGCAGTTATG
EST: gi|29614945|gb|CB619958.1|CB619958
EST:     CTGACGTAGCAGTGATAATGTATACAAGCGGTAGCACCGGATTGCCTAAG                         GGAGTAATGATGACCCATCGGAACGTCCTGGCTACACTTTCAGCAGTTATG
genomic: CTGACGTAGCAGTGATAATGTATACAAGCGGTAGCACCGGATTGCCTAAGgtttgcccaa ... tgttttatagGGAGTAATGATGACCCATCGGAACGTCCTGGCTACACTTTCAGCAGTTATG