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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgacattttgtccattttttctggcatgatcaactgtttttttattcagcacaacctttgtccgccttgctattctgtacacattttgatggcagctggcattctagaatgcatactaacattttctttctgtaaacatccatttggcagCACTCTAAGCGGCATTCATGGTGTACCAAGAGTACATTATAAAGGGAGGCAGGGGGATTACTATATCATG

Basic information

species Oryza sativa
transcript LOC_Os05g11140.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g11140.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G116151_T03 (Zea mays), 3'ss of exon 3
gtaagtgacat-tttgtccattttttctggcatgatcaactgtttttttattcagcacaacctttgtccgccttgctattctgtacacattttgatggcagctggcattctagaatgcatactaacattttctttctgtaaacatccatttggcagCACTCTAAGCGGCATTCATGGTGTACCAAGAGTACATTATAAAGGGAGGCAGGGGGATTACTATATCATG
|||||||||   ||||||| |  ||| |       |||   |||| |  |      | ||  ||  |  ||||||  ||    | ||  ||       || |||| |||        | |   ||| ||||     |||   | |||||   |||||||||| ||||| |||||||| |||||||||||||| || ||||||| || ||| || || |||||||||
gtaagtgacggatttgtccttccttttt-------tcactggtttctaca------aaaaatttctttggccttgtcatctattgcatgttc------caactggaatt-------acgtctgaactttttggccttgt---cgtccatcctgcagCACTCTTAGCGGAATTCATGGCGTACCAAGAGTACACTACAAAGGGAAGCTGGGAGAGTATTATATCATG
















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|29681938|gb|CB678213.1|CB678213
EST:     ACCAGCAAAGGCTGCAATTATGGAGCTCCCTATGAGTGGCAAGTTTACAA                         CACTCTAAGCGGCATTCATGGTGTACCAAGAGTACATTATAAAGGGAGGCA
genomic: ACCAGCAAAGGCTGCAATTATGGAGCTCCCTATGAGTGGCAAGTTTACAAgtaagtgaca ... catttggcagCACTCTAAGCGGCATTCATGGTGTACCAAGAGTACATTATAAAGGGAGGCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggcattctagaatgcatactaacattttctttctgtaaacatccatttggcagCACTCTAAGCGGCATTCATGGTGTACCAAGAGTACATTATAAAGGGAGGCAGGGGGATTACTATATCATG
                  tactaac  putative branch site (score: 0)
                                           tccattt  putative PPT
                     taacatttt  TA-rich tract