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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtgtatttcgaactgtggagcgatccggtgaataatctgaaaagaactggtggttatatttctctgtttctattctcaaataatttgcttcccatgcagGTGTTTAATAATAGTCCAGATGAAACTGCATATTTTAGGATGATGTTAAACAGAGAGAATGTAGCGAATGCAGTTGTGATGATCCAGCCTTCACTTATAT

Basic information

species Oryza sativa
transcript LOC_Os08g36994.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g36994.1 (Oryza sativa), 3'ss of exon 11
lower sequence: Vv15s0045g00540.t01 (Vitis vinifera), 3'ss of exon 11
-----------------tgtgtatttcgaactgtggagcgatccggtgaataatctgaaaagaactggtggttatatttctctgtt-tctattctcaaataat---------ttgcttcccatgcagGTGTTTAATAATAGTCCAGATGAAACTGCATATTTTAGGATGATGTTAAACAGAGAGAATGTAGCGAATGCAGTTGTGATGATCCAGCCTTCACTTATAT
                 | | || ||| | || || | |  |        || | |||  |  | |  |   | |    | || || |||  |||  | | ||         ||  ||      ||||| |||||||| || || ||||| |||||||| ||||| |||||  | ||| | || ||||| || ||| ||||||||||||| ||||||||| | || |
gtataactgactattggtttataattctatctttgcatc--ttataatcgtagtttgatgatgattaattactctcgccccctcttatcttctctagatttatctctggcaattctttttgtcacagGTTTTTAATAACAGCCCTGATGAGACTGCATACTTTAGAATGATCCTGAACCGGGAAAATGTGGCCAATTCAGTTGTGATGATTCAGCCTTCATTGATTT
















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|58656399|gb|CK045079.1|CK045079
EST:     CAATATTTCCACAATTTATGTTTAATTTAAGGCGTTCTCAGTTTGTTCAG                         GTGTCTAATAATAGTCCAGATGAAACTGCATATTTTAGGATGATGTTCAAC
genomic: CAATATTTCCACAATTTATGTTTAATTTAAGGCGTTCTCAGTTTGTTCAGgtaatctgtt ... tcccatgcagGTGTTTAATAATAGTCCAGATGAAACTGCATATTTTAGGATGATGTTAAAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactggtggttatatttctctgtttctattctcaaataatttgcttcccatgcagGTGTTTAATAATAGTCCAGATGAAACTGCATATTTTAGGATGATGTTAAACAGAGAGAATGTAGCGAATGCAGTTGTGATGATCCAGCCTTCACTTATAT
                                       tttgcttccc  CT-rich tract
                          tattctcaaataattt  TA-rich tract