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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttgattgcatgctgaatcatcagtactgtaaatgtctgcaagctgtgtaggtaagcaaaacgtctagtatgattgcttttttatttttggtacttgtagGCACTACTTGAAGCACTTGGAGATCGAAAAGGAATTAATCGGTTTGGGCATTTTACAGCACCACTTGATGAGGCAGCGGTTGAGGTTATACTG

Basic information

species Oryza sativa
transcript LOC_Os04g52710.3
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g52710.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G094255_T02 (Zea mays), 3'ss of exon 3
----gttgattgcatgctgaatcatcagtactgtaaatgtctgcaagctgtgtaggtaagcaaaacgtctagtatgattgcttttttatttttggtacttgtagGCACTACTTGAAGCACTTGGAGATCGAAAAGGAATTAATCGGTTTGGGCATTTTACAGCACCACTTGATGAGGCAGCGGTTGAGGTTATACTG
     |  |    |||||||| || |  || | ||  | | || || |    ||| || ||| |   || | || |||    || |   || ||||   ||||||||||||||||||||||||| |||||||| |||||||| || ||||| |||||||||||||| ||||||||||||||||||||||||||||||
cagcatataacttatgctgaaccacctataat-tagttctatggaatcatcatagataggcagataatc-aataagatgatcttct--cttatggtctatgtagGCACTACTTGAAGCACTTGGTGATCGAAAGGGAATTAACCGATTTGGTCATTTTACAGCACCGCTTGATGAGGCAGCGGTTGAGGTTATACTG
















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|58588701|gb|CF987009.1|CF987009
EST:     ACATCGATGACCATCACTCAAACGAAGACATCGCTTTGGCAATTGGAACG                         GCACTACTTGAAGCACTTGGAGATCGAAAAGGAATTAATCGGTTTGGGCAT
genomic: ACATCGATGACCATCACTCAAACGAAGACATCGCTTTGGCAATTGGAACGgtaattgttg ... gtacttgtagGCACTACTTGAAGCACTTGGAGATCGAAAAGGAATTAATCGGTTTGGGCAT
EST: gi|29658246|gb|CB654521.1|CB654521
EST:     ACATCGATGACCATCACTCAAACGAAGACATCGCTTTGGCAATTGGAACG                         GCACTACTTGAAGCACTTGGAGATCGAAAAGGAATTAATCGGTTTGGGCAT
genomic: ACATCGATGACCATCACTCAAACGAAGACATCGCTTTGGCAATTGGAACGgtaattgttg ... gtacttgtagGCACTACTTGAAGCACTTGGAGATCGAAAAGGAATTAATCGGTTTGGGCAT
EST: gi|29676398|gb|CB672673.1|CB672673
EST:     ACATCGATGACCATCACTCAAACGAAGACATCGCTT-GGCAATTGGAACG                         GCACTACTTGAAGCACTTGGAGATCGAAAAGGAATTAATCGGTTTGGGCAT
genomic: ACATCGATGACCATCACTCAAACGAAGACATCGCTTTGGCAATTGGAACGgtaattgttg ... gtacttgtagGCACTACTTGAAGCACTTGGAGATCGAAAAGGAATTAATCGGTTTGGGCAT
EST: gi|218497506|gb|FG955300.1|FG955300
EST:     ACATCGATGACCATCACTCAAACGAAGACATCGCTTTGGCAATTGGAACG                         GCACTACTTGAAGCACTTGGAGATC
genomic: ACATCGATGACCATCACTCAAACGAAGACATCGCTTTGGCAATTGGAACGgtaattgttg ... gtacttgtagGCACTACTTGAAGCACTTGGAGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtaggtaagcaaaacgtctagtatgattgcttttttatttttggtacttgtagGCACTACTTGAAGCACTTGGAGATCGAAAAGGAATTAATCGGTTTGGGCATTTTACAGCACCACTTGATGAGGCAGCGGTTGAGGTTATACTG
                       tatgattgctttttta  TA-rich tract