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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggttgcaggcgccttacaacacaactatagctatgcactattagttttgataatgattttaactgaaaactgttcattgtcatttctgttctttcagATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTG

Basic information

species Oryza sativa
transcript LOC_Os01g19150.5
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g19150.4 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G075992_T01 (Zea mays), 3'ss of exon 1
---------gtaaggttgcaggcgccttacaacacaactatagctatgcactatta-gttttgataatgattttaactgaaaactgttcattgtcattt--ctgttctttcagATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTG
          | |  ||| | |  |||| ||| ||| || |   | ||  || ||  ||    ||||| ||||| ||||||  |  ||  || | |||   ||    || ||||||||||| |||||||| ||| |||| ||||| || ||||| ||||||||||||||||||||||| |||||  ||
gtaatgtctttcattttgtaagtaccttccaatacagctttgattgtgtccttttttgtaccaataattatttttactgaa--cctttggtttttattggactaaatttacagATTTGTAGAGCTTTGGCTTACCTTCACAACTGCGTAGGAGTGTGCCACAGAGATATAAAGCCACAAAATATTCTG
















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|29628248|gb|CB633259.1|CB633259
EST:     AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAG                         ATTTGTAGAGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
genomic: AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAGgtaaggttgc ... gttctttcagATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
EST: gi|33683226|gb|CF311465.1|CF311465
EST:     ACTTTATATGTACCAG                         ATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
genomic: ACTTTATATGTACCAGgtaaggttgc ... gttctttcagATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
EST: gi|29668828|gb|CB665103.1|CB665103
EST:     AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAG                         ATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
genomic: AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAGgtaaggttgc ... gttctttcagATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
EST: gi|29628183|gb|CB633194.1|CB633194
EST:     AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAG                         ATTTGTAGAGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
genomic: AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAGgtaaggttgc ... gttctttcagATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
EST: gi|29637277|gb|CB642286.1|CB642286
EST:     AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAG                         ATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
genomic: AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAGgtaaggttgc ... gttctttcagATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
EST: gi|29666642|gb|CB662917.1|CB662917
EST:     AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAG                         ATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
genomic: AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAGgtaaggttgc ... gttctttcagATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
EST: gi|218502361|gb|FG956952.1|FG956952
EST:     AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAG                         ATTTGTAGAGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
genomic: AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAGgtaaggttgc ... gttctttcagATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
EST: gi|29668963|gb|CB665238.1|CB665238
EST:     AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAG                         ATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA
genomic: AGATGAGCCAACGCATGCCATTGATTTATGTTAAACTTTATATGTACCAGgtaaggttgc ... gttctttcagATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttttgataatgattttaactgaaaactgttcattgtcatttctgttctttcagATTTGTAGGGCTTTGGCATACATTCATAACTGTGTGGGAGTATGCCACAGAGATATAAAGCCACAGAATATATTG
              ttttaac  putative branch site (score: 2)
                                     tcatttctgttctttc  putative PPT
     tgataatgattttaa  TA-rich tract