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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgtaaatttattgctgattactgacatgtggataagataccaaaatgttctgaattcttttgatggtaacatcttccttcgtagGTCGGATTCTCATTGGCCTTTGTAATCCATGAGTCAGCAAATCCTCATATCG

Basic information

species Oryza sativa
transcript LOC_Os09g06499.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g06499.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G068212_T01 (Zea mays), 3'ss of exon 12
--------gtaagt-gtaaatttattgctgattactgacatgtggataagatacca-aaatgttctgaattcttttgatggtaacatcttccttcgtagGTCGGATTCTCATTGGCCTTTGTAATCCATGAGTCAGCAAATCCTCATATCG
          ||||  |  |||| | | | || |  |   | | | |   ||   | |||  |||     | |||| || |||  || || |||  ||||| | |||||||||||||||||| || ||||||||||||||||| ||||| |
gtaaaatcacaagtcatctatttttagtttatcatagttttatcgttgtcatgaaagaaacattcc----ttttttaattgtattatttttctttttagGTTGCATTCTCATTGGCCTTTGTGATTCATGAGTCAGCAAATCCACATATAG
















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|29661763|gb|CB658038.1|CB658038
EST:     CATTCATTACAACATTAATTTTTGGTATTGAGATTGGTGTTCTTGTTGGG                         GTCGGATTCTCATTGGCCTTTGTAATCCATGAGTCAGCAAATCCTCATATC
genomic: CATTCATTACAACATTAATTTTTGGTATTGAGATTGGTGTTCTTGTTGGGgtaagtgtaa ... tccttcgtagGTCGGATTCTCATTGGCCTTTGTAATCCATGAGTCAGCAAATCCTCATATC
EST: gi|29674507|gb|CB670782.1|CB670782
EST:     TTAATTTTTGGTATTGAGATTGGTGTTCTTGTGGGG                         GTCGGATTCTCATTGGCCTTTGTAATCCATGAGTCAGCAAATCCTCATATC
genomic: TTAATTTTTGGTATTGAGATTGGTGTTCTTGTTGGGgtaagtgtaa ... tccttcgtagGTCGGATTCTCATTGGCCTTTGTAATCCATGAGTCAGCAAATCCTCATATC
EST: gi|86900178|gb|CI300201.1|CI300201
EST:     ATTTTTGGTATTGAGATTGGTGTTCTTGTTGGG                         GTCGGATTCTCATTGGCCTTTGTAATCCATGAGTCAGCAAATCCTCATATC
genomic: ATTTTTGGTATTGAGATTGGTGTTCTTGTTGGGgtaagtgtaa ... tccttcgtagGTCGGATTCTCATTGGCCTTTGTAATCCATGAGTCAGCAAATCCTCATATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggataagataccaaaatgttctgaattcttttgatggtaacatcttccttcgtagGTCGGATTCTCATTGGCCTTTGTAATCCATGAGTCAGCAAATCCTCATATCG
                                  tggtaac  putative branch site (score: 2)
                                        catcttccttc  CT-rich tract
                       aattctttt  TA-rich tract