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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttctatcttgattgattttatgtgttcttaatattatgcttctatgtgtcaatctactcaatgtagtaccagataacatgcttgtgaattttttgcagGTATATGATGAAGACAGACTTCAGCAAGACAAAAAGCTTGGTGTAGCTAAACTAGCAGTGAACAGTCTTCAACCTGAGGCTACCAGTGAAATCACTTTGA

Basic information

species Oryza sativa
transcript LOC_Os07g22640.4
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g22640.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G092129_T02 (Zea mays), 3'ss of exon 9
---gtttctatcttgattgattttatgtgttcttaatattatgcttctatgtgtcaatctactcaatgtagtaccagataacatgcttgtga-attttttgcagGTATATGATGAAGACAGACTTCAGCAAGACAAAAAGCTTGGTGTAGCTAAACTAGCAGTGAACAGTCTTCAACCTGAGGCTACCAGTGAAATCACTTTGA
    |     | |  ||  | || |||| ||   | |  |    | | |  |  ||||  ||      |  |      | | ||  |||||      ||  ||||| || || ||||||| ||||||||||||||| |  || ||||| || ||||||||||| |||| |||| || |||||  ||||   ||   |||| |||
gacatcctcgtataaat--acttaatgt-ttgacactgctccaatacgagataccaattaacctggcttgttttgttgtga-atatttgtggtggacttcacagGTTTACGACGAAGACAAACTTCAGCAAGACAAGAGACTAGGTGTGGCAAAACTAGCAGTAAACACTCTTGAATCTGAGATTACCCAAGACGCCACTCTGA
















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|29624991|gb|CB630002.1|CB630002
EST:     AAGTGGCCACACAGGCTTGTTGTTCCACTTGGTGTCAATGTTGATACAAG                         GTATATGATGAAGACAGACTTCAGCAAGACAANAAGCTTGGTGTAGCTAAA
genomic: AAGTGGCCACACAGGCTTGTTGTTCCACTTGGTGTCAATGTTGATACAAGgtgacttctc ... ttttttgcagGTATATGATGAAGACAGACTTCAGCAAGACAAAAAGCTTGGTGTAGCTAAA
EST: gi|29624993|gb|CB630004.1|CB630004
EST:     AAGTGGCCACACAGGCTTGTTGTTCCACTTGGTGTCAATGTTGATACAAG                         GTATATGATGAAGACAGAC
genomic: AAGTGGCCACACAGGCTTGTTGTTCCACTTGGTGTCAATGTTGATACAAGgtgacttctc ... ttttttgcagGTATATGATGAAGACAGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtgtcaatctactcaatgtagtaccagataacatgcttgtgaattttttgcagGTATATGATGAAGACAGACTTCAGCAAGACAAAAAGCTTGGTGTAGCTAAACTAGCAGTGAACAGTCTTCAACCTGAGGCTACCAGTGAAATCACTTTGA
                           agataac  putative branch site (score: 3)
                                             ttttttgc  putative PPT
                                         tgaatttttt  TA-rich tract