Brassica rapa small RNA Signature Analysis

The basic information for the sequence you selected is listed below. In the second table, all occurrences of this sequence are listed regardless of the genomic location you selected.

Sequence: CATCAATGAAAGGTATGATTCC
Length: 22 nucleotides
Number of hits: 2

#ChrStrandCoordinatePhasing AnalysisGeneGene strandGene startGene stopGene function
16w28,158,923Phasing windowLink to IGR (1,404 bp)Small region at sequence (3 kb)

Other perfect matches found in genome in addition to that listed above.

#ChrStrandCoordinatePhasing AnalysisGeneGene strandGene startGene stopGene function
29c11,515,612Phasing windowBraA09g018220.3Cw11,515,47111,515,986GO:0005515; protein binding; molecular_function,GO:0007165; signal transduction; biological_process




Expression Data for This Signature

SBS data are shown in table below. The raw abundance and totals are listed to the left (totals reflect only genome-matched signatures), with several columns to the right indicating the normalized values for different denominators. The normalization denominator may vary among libraries, because the total number of genome-matched reads varies substantially (depending on the depth of sequencing). Black text is used to identify the most appropriate normalized value.

Raw DataSeparatorNormalization Denominator
Data typeRawTotalSeparator5M
Bn_rdr2_12481,479,795Separator838
Bn_rdr2_24061,378,684Separator1,472
Bn_wt_11,6263,804,434Separator2,137
Bn_wt_2288916,654Separator1,571
Bn_wt_31,6222,471,459Separator3,281
SRR21366462,41710,031,897Separator1,205
SRR21366472,59111,998,088Separator1,080
SRR29128938979,097,843Separator493
SRR29128943,93011,187,226Separator1,756
SRR29128919938,184,406Separator607