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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcaacagctttgttgattttttccacagacaaatttctctcttgtgacaaaattctaattagttattgctttttggctcatagGGTAAAGAGGTCAACCTCTTCCAACCTGCAAGTGAGTTTTTACCTATGATTAGCGAG

Basic information

species Oryza sativa
transcript LOC_Os10g40555.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g40550.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G178546_T01 (Zea mays), 3'ss of exon 5
gtgcaacagctttgttgattttttccacagac--aaatttctctcttgtgacaaaattctaattagttattgctt-tttggctcatagGGTAAAGAGGTCAACCTCTTCCAACCTGCAAGTGAGTTTTTACCTATGATTAGCGAG
||| |||  |||| | ||| ||| ||    |   |||| | |  ||||        |  || |  ||   | ||| |    ||| ||||||||||| |||||||| ||||||||||| |||||||||||||||||||| |  |||
gtgaaactactttctagatctttaccctcaatttaaatgttttacttgct-----ttcttagtgtgtatcttcttatcctcctcgtagGGTAAAGAAGTCAACCTGTTCCAACCTGCTAGTGAGTTTTTACCTATGATCACTGAG
















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|58607388|gb|CK035421.1|CK035421
EST:     CTGATTCGAGTGGTCAGCATGTGGAATGTATCAGGTCCACTGATTCAGAG                         GGTAAAGAGGTCAACCTCTTCCAACCTGCAAGTGAGTTTTTACCTATGATC
genomic: CTGATTCGAGTGGTCAGCATGTGGAATGTATCAGGTCCACTGATTCAGAGgtgcaacagc ... tggctcatagGGTAAAGAGGTCAACCTCTTCCAACCTGCAAGTGAGTTTTTACCTATGATT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaaatttctctcttgtgacaaaattctaattagttattgctttttggctcatagGGTAAAGAGGTCAACCTCTTCCAACCTGCAAGTGAGTTTTTACCTATGATTAGCGAG
                        ttctaat  putative branch site (score: 2)
                                     ttgcttttt  putative PPT
                  acaaaattctaattag  TA-rich tract