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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttgacatatcccatggcatttccttttctatgtagtatcttttttggaatcattgataacgcattttttttcagATGGGGAGGAACTTTGATGAACTCGTTCCTGTTTAATGTTGGACTCATCCTACTTTGCTCCATCAG

Basic information

species Oryza sativa
transcript LOC_Os06g03760.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g03760.2 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM5G871262_T02 (Zea mays), 3'ss of exon 10
gtatttgacatatcccatggcatttccttttctatgtagtat--cttttttggaatc--attgataacgcatt----ttttttcagATGGGGAGGAACTTTGATGAACTCGTTCCTGTTTAATGTTGGACTCATCCTACTTTGCTCCATCAG
|||     |  || || | ||||    |||| | || | | |  ||| ||   ||||  ||| | ||  || |    |  ||||||||||||||| ||||| |||||||| ||  ||||||||||||| ||||| |||||||||||||||||
gtaaccagctcataccttagcatgctattttttgtgcacttttacttattataaatctcattaacaaaccaatcaattcgtttcagATGGGGAGGCACTTTAATGAACTCCTTTTTGTTTAATGTTGGGCTCATACTACTTTGCTCCATCAG

upper sequence: LOC_Os06g03760.2 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G012284_T01 (Zea mays), 3'ss of exon 8
gtatttgacatatcccatggcatttccttttctatgtagtatc--ttttttggaatcattgataacg----cattttttttcagATGGGGAGGAACTTTGATGAACTCGTTCCTGTTTAATGTTGGACTCATCCTACTTTGCTCCATCAG
|||     |  || ||  |||||    |||| | || ||| |   |||||    |||| | | ||      || ||| ||||||||||||||| ||||| |||||||| ||||||||||||||||| ||||| |||||||||||||||||
gtaaccagctgatacctgggcatgctattttttctgcagttttattttttcaatatcactaacaaacaaatcaatttgtttcagATGGGGAGGCACTTTAATGAACTCCTTCCTGTTTAATGTTGGGCTCATACTACTTTGCTCCATCAG
















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|58684950|gb|CK073637.1|CK073637
EST:     GAAATGATGCTGGGTTTGAAATTAGTTTTCATCACCATTCACCCAATGAA                         ATGGGGAGGAACTTTGATGAACTCGTTCCTGTTTAATGTTGGACTCATCCT
genomic: GAAATGATGCTGGGTTTGAAATTAGTTTTCATCACCATTCACCCAATGAAgtatttgaca ... tttttttcagATGGGGAGGAACTTTGATGAACTCGTTCCTGTTTAATGTTGGACTCATCCT
EST: gi|5667175|gb|AU077435.1|AU077435
EST:     GAAATGATGCTGGGTTTGAAATTAGTTTTCATCACCATTCACCCAATGAA                         ATGGGGAGGAACTTTGATGAACTCGTTCCTGTTTAATGTTGGACTCATCCT
genomic: GAAATGATGCTGGGTTTGAAATTAGTTTTCATCACCATTCACCCAATGAAgtatttgaca ... tttttttcagATGGGGAGGAACTTTGATGAACTCGTTCCTGTTTAATGTTGGACTCATCCT
EST: gi|55827892|gb|AU063117.2|AU063117
EST:     GAAATGATGCTGGGTTTGAAATTAGTTTTCATCACCATTCACCCAATGAA                         ATGGGGAGGAACTTTGATGAACTCGTTCCTGTTTAATGTTGGACTCATCCT
genomic: GAAATGATGCTGGGTTTGAAATTAGTTTTCATCACCATTCACCCAATGAAgtatttgaca ... tttttttcagATGGGGAGGAACTTTGATGAACTCGTTCCTGTTTAATGTTGGACTCATCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccttttctatgtagtatcttttttggaatcattgataacgcattttttttcagATGGGGAGGAACTTTGATGAACTCGTTCCTGTTTAATGTTGGACTCATCCTACTTTGCTCCATCAG
                                  tgataac  putative branch site (score: 2)
                                          cattttttttc  CT-rich tract
                                           attttttttca  TA-rich tract