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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtatcaattaaccacttcccgtattcctccagacaatcttttcataacttttataatccacactttttatcttaacagATTGTCGAAGCATTGAGTAATGCATATTTTGGACCTGATTACTCTCAG

Basic information

species Oryza sativa
transcript LOC_Os07g22400.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g22400.1 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G130351_T01 (Zea mays), 3'ss of exon 10
gtgagt-atcaattaaccacttcccgta--ttcctccagacaatcttttcataacttttataatccacactttttatcttaacagATTGTCGAAGCATTGAGTAATGCATATTTTGGACCTGATTACTCTCAG
|||||| |||| |  ||| ||||||     ||| | |||| |   |||| ||| | | | | || |  | |||| ||  | |||||||||||||||||| || ||||| ||||||||||| |||||||| |||
gtgagttatcagtgtaccgcttcccaccctttctttcaga-accttttttatatcctctgtgatgcctaatttt-attatgacagATTGTCGAAGCATTAAGCAATGCTTATTTTGGACCCGATTACTCCCAG

upper sequence: LOC_Os07g22400.1 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G044317_T03 (Zea mays), 3'ss of exon 10
gtgagtatcaattaaccacttcccgtattcctccagacaatcttttcataacttttataatccacactttttatcttaacagATTGTCGAAGCATTGAGTAATGCATATTTTGGACCTGATTACTCTCAG
||||||| ||    ||| |||| |    |       | || ||||| |||  |  ||| || |  | |||| ||  | ||||||||| |||||||| || ||||| ||||||||||||||||||||||||
gtgagtaccagagtaccgcttctccacctttctttcagaacctttttata--tcctatgatgcctaatttt-attatgacagATTGTTGAAGCATTAAGCAATGCGTATTTTGGACCTGATTACTCTCAG
















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|3766960|gb|AU031070.1|AU031070
EST:     AAAATGGACGGCCACCATTAAGGAACAAGAAAAGGATAGGTTGACTCCT                         ATTGTCGAAGCATTGAGTAATGCATATTTTGGACCTGATTACTCTCAG
genomic: AAAATGGACGGCCACCATTAAGGAACAAGAAAAGGATAGGTTGACTCCTgtgagtatca ... atcttaacagATTGTCGAAGCATTGAGTAATGCATATTTTGGACCTGATTACTCTCAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcctccagacaatcttttcataacttttataatccacactttttatcttaacagATTGTCGAAGCATTGAGTAATGCATATTTTGGACCTGATTACTCTCAG
                  tcataac  putative branch site (score: 2)
                                       ctttttatctt  putative PPT
           aatcttttcataactt  TA-rich tract