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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcaattcatataatctgattgatttctttggcccttcagttctgagtttgcaaaatatagtgatttttagcaaagctaactgtttatttcatttaacagATGGAATTGTGCATCATGCTGCTTGAGTGCTGCAGCCAAGAGAGAACATACCTGCGATATTATGGATTGCTAGGGCAGCGATTTTGCATGATTAACAAAG

Basic information

species Oryza sativa
transcript LOC_Os11g05394.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g05394.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G102898_T01 (Zea mays), 3'ss of exon 1
-ttcaattcatataatctgattgatttctttg-gcccttcagttctgagtttgcaaaatatagtgatttttagcaaagctaactgtttatttcatttaacagATGGAATTGTGCATCATGCTGCTTGAGTGCTGCAGCCAAGAGAGAACATACCTGCGATATTATGGATTGCTAGGGCAGCGATTTTGCATGATTAACAAAG
 ||    |  | |  |||   |||    |  |    | | | || |  |     ||  |  |   ||| ||  |  |   || ||||| |||  |    ||||||||  ||||||| ||||| |||||||| ||||| || ||||||||||| || || ||||||||  ||||||| ||||| ||||||||||| || ||||
ctttgtcttctgttgtcttgatgaaaaatcggcaatcattacttttttgaggaaaatgtgcaagtattgttccctgacaaaaatgtttgttttgt--ggcagATGGAGCTGTGCATTATGCTTCTTGAGTGTTGCAGTCAGGAGAGAACATATCTTCGTTATTATGGGCTGCTAGGACAGCGTTTTTGCATGATCAATAAAG
















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|58601759|gb|CK012287.1|CK012287
EST:     GGTCACAAGCTTCTAAAAATTAAACTTGAGCCTGGTCAAGAG                         ATGGAATTGTGCATCATGCTGCTTGAGTGCTGCAGCCAAGAGAGAACATAC
genomic: GGTCACAAGCTTCTAAAAATTAAACTTGAGCCTGGTCAAGAGgtaagtactg ... catttaacagATGGAATTGTGCATCATGCTGCTTGAGTGCTGCAGCCAAGAGAGAACATAC
EST: gi|218479042|gb|FG955973.1|FG955973
EST:     AAGAAGCTGGTCACAAGCTTCTAAAAATTAAACTTGAGCCTGGTCAAGAG                         ATGGAATTGTGCATCATGCTGCTTGAGTGCTGCAGCCAAGAGAGAACATAC
genomic: AAGAAGCTGGTCACAAGCTTCTAAAAATTAAACTTGAGCCTGGTCAAGAGgtaagtactg ... catttaacagATGGAATTGTGCATCATGCTGCTTGAGTGCTGCAGCCAAGAGAGAACATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtttgcaaaatatagtgatttttagcaaagctaactgtttatttcatttaacagATGGAATTGTGCATCATGCTGCTTGAGTGCTGCAGCCAAGAGAGAACATACCTGCGATATTATGGATTGCTAGGGCAGCGATTTTGCATGATTAACAAAG
                             agctaac  putative branch site (score: 2)
                                      tttatttc  putative PPT
       aaaatatagtgatttt  TA-rich tract