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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgctgcgaaaacgagactggaaacttctatgtactttttggatgttgtttcctgcccattctaaacatacttgtataatttaatagGTTGTTTCGCTTGTGGTTACCCAATTCCGCTGCAATATCTCGAAGGCACTTGTTTTAACAAATAG

Basic information

species Oryza sativa
transcript LOC_Os07g22400.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g22400.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G044317_T02 (Zea mays), 3'ss of exon 8
gtttgctgcgaaaacgagactggaaacttctatgtactttttggatgttgtttcctgcccattctaaacatacttgtataatttaatagGTTGTTTCGCTTGTGGTTACCCAATTCCGCTGCAATATCTCGAAGGCACTTGTTTTAACAAATAG
|||||| |  ||   |||| |  ||| ||| ||     |||||| ||  |        || || | ||||||  | ||||||||  ||||| ||||| || |||||||| |||||||||||||||||||| |||||||||| ||||||||| ||
gtttgccgttaacgtgagaataaaaatttcaattgttgttttggttggcg-------gcctttatgaacatagctatataattttgtagGTGGTTTCTCTAGTGGTTACTCAATTCCGCTGCAATATCTCAAAGGCACTTGCTTTAACAAACAG

upper sequence: LOC_Os07g22400.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G044317_T03 (Zea mays), 3'ss of exon 8
gtttgctgcgaaaacgagactggaaacttctatgtactttttggatgttgtttcctgcccattctaaacatacttgtataatttaatagGTTGTTTCGCTTGTGGTTACCCAATTCCGCTGCAATATCTCGAAGGCACTTGTTTTAACAAATAG
               |||| |  ||| ||| ||     |||||| ||  |        || || | ||||||  | ||||||||  ||||| ||||| || |||||||| |||||||||||||||||||| |||||||||| ||||||||| ||
-------------gtgagaataaaaatttcaattgttgttttggttggcg-------gcctttatgaacatagctatataattttgtagGTGGTTTCTCTAGTGGTTACTCAATTCCGCTGCAATATCTCAAAGGCACTTGCTTTAACAAACAG

upper sequence: LOC_Os07g22400.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G130351_T01 (Zea mays), 3'ss of exon 8
gtttgctgcgaaaacgagactggaaacttctatgtactttttggatgttgtttcctgcccattctaaacatacttgtataatttaatagGTTGTTTCGCTTGTGGTTACCCAATTCCGCTGCAATATCTCGAAGGCACTTGTTTTAACAAATAG
||||||||  ||  || || |  ||||||  |  |  | ||||| || |||    |  |       ||||||| | || ||||   ||||| |||||||| |||||||| ||||||||||||||||| || |||||||||| ||||||||| ||
gtttgctgttaactcgtgaata-aaactttcaattgttgtttggttgatgtcctttatc-------aacatacctatacaattctgtagGTGGTTTCGCTAGTGGTTACTCAATTCCGCTGCAATATTTCAAAGGCACTTGCTTTAACAAACAG

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|58684951|gb|CK073638.1|CK073638
EST:     GCCGCCGAGTATTTCTTTCAAAAGGATATGCTTATGTTGCGATGAGTCAG                         GTTGTTTCGCTTGTGGTTACCCAATTCCGCTGCAATATCTCGAAGGCACTT
genomic: GCCGCCGAGTATTTCTTTCAAAAGGATATGCTTATGTTGCGATGAGTCAGgtttgctgcg ... aatttaatagGTTGTTTCGCTTGTGGTTACCCAATTCCGCTGCAATATCTCGAAGGCACTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactttttggatgttgtttcctgcccattctaaacatacttgtataatttaatagGTTGTTTCGCTTGTGGTTACCCAATTCCGCTGCAATATCTCGAAGGCACTTGTTTTAACAAATAG
                           ttctaaa  putative branch site (score: 2)
                          attctaaacatacttg  TA-rich tract