Region for Gene ENSRNOG00000000456 (Uniprot/SWISSPROT: Psmb8)

This page describes one promoter-based search region.

The image shown below was created to provide context for this search region by showing a 100000 bp span of the genome, centered on this search region.

The first track shows the location of the search region in red. The last track shows known gene locations in this 100000 bp span of the genome.

This promoter-based search region is located close to a particular gene of interest, described in the table below. Click on the gene id to open a page at ensembl.org with more information about this gene.

The image shown below illustrates the location of the motifs and modules within this search region.
However, the number of modules in a region may exceed the genome browser's track limit. Thus, for each type of module (pattern), the text in the yellow box below indicates whether or not any modules of that type exist, and if so, whether or not all the modules of that type are displayed. (If it indicates that only the top 20 modules are displayed, this ranking is based on the number of instances of each module.)

User-specified filter settings do not affect the features displayed in the UCSC genome browser view.

About the patterns shown in this image:
There are no 'de novo' patterns to show.
There are no (TRANSFAC) annotation-based patterns to show.
There are no (JASPAR) annotation-based patterns to show.

Click on the image to view this region at UCSC.

This image uses the Rat genome assembly from Jun 2003. (UCSC rn3, RGSC 3.1, Ensembl v22) and contains a number of custom tracks followed by several UCSC tracks. The custom tracks show: The long red and gray bar at the top shows the nominal 'search region' within which comparative genomics discovery methods were applied. Motif predictions were not made in coding exons and most types of repeats. In this database, the locations of masks applied to the search region are shown in gray. The numbered brown blocks are 'atomic' motifs, i.e. conserved DNA sequence motifs that were identified by discovery methods and post-processing operations. Motifs are shaded to indicate the discovery p-value; a darker motif was more significant at the discovery stage. Following the motif discovery stage, motifs were filtered by membership in co-occurring patterns, and patterns were ranked by genome-scale properties. Motifs instances that occur in highly-ranked putative regulatory modules may be more reliable predictions of functional genomic elements. The connected sets of blue boxes are co-occurring patterns, i.e. putative regulatory modules. Modules are shaded to indicate the number of times that a pattern is found in the target genome; a darker module is associated with more search regions. An pattern is called either 'de novo' or annotation-based, depending on the type of groups that appear in the pattern. (see next point) Before patterns (i.e. modules) can be identified from atomic motifs, groups of similar motifs must be found; modules are then identified as co-occurring 'group labels' that satisfy certain criteria. Such groups can be identified a) by annotating atomic motifs with known binding site resources from TRANSFAC, JASPAR or ORegAnno; or b) by 'de novo' clustering. Currently we show both types of patterns, but we consider annotation-based groups and patterns to be more reliable than 'de novo' groups and patterns. Work to improve genome-scale 'de novo' grouping is ongoing.

Showing 31 out of 31 atomic motifs.

Group(s) crtRnor#(name) [p-value]	Motif craRnor#	Discovery p-value	Location	Width	(+)motif	(-)motif
0 annotated groups 1 'de novo' group(s) 9045	25440	1.33E-01	chr20:4,789,441-4,789,452	12	TCGCTTTCACTT	AAGTGAAAGCGA
0 annotated groups 1 'de novo' group(s) 9045	25388	1.33E-01	chr20:4,789,442-4,789,453	12	TTCGCTTTCACT	AGTGAAAGCGAA
0 annotated groups 1 'de novo' group(s) 9882	25695	5.49E-03	chr20:4,789,442-4,789,451	10	CGCTTTCACT	AGTGAAAGCG
0 annotated groups 1 'de novo' group(s) 9045	25271	1.33E-01	chr20:4,789,443-4,789,454	12	TTTCGCTTTCAC	GTGAAAGCGAAA
0 annotated groups 0 'de novo' group(s)	25597	5.49E-03	chr20:4,789,443-4,789,452	10	TCGCTTTCAC	GTGAAAGCGA
0 annotated groups 0 'de novo' group(s)	25787	5.49E-03	chr20:4,789,443-4,789,450	8	GCTTTCAC	GTGAAAGC
0 annotated groups 1 'de novo' group(s) 9045	25101	1.33E-01	chr20:4,789,444-4,789,455	12	CTTTCGCTTTCA	TGAAAGCGAAAG
0 annotated groups 0 'de novo' group(s)	25223	8.33E-03	chr20:4,789,445-4,789,454	10	TTTCGCTTTC	GAAAGCGAAA
0 annotated groups 0 'de novo' group(s)	25541	5.49E-03	chr20:4,789,445-4,789,452	8	TCGCTTTC	GAAAGCGA
0 annotated groups 0 'de novo' group(s)	25740	5.49E-03	chr20:4,789,445-4,789,450	6	GCTTTC	GAAAGC
0 annotated groups 1 'de novo' group(s) 14155	25837	7.71E-02	chr20:4,789,445-4,789,464	20	GkyGTGTGACGTCrrCAkTT	AAmTGyyGACGTCACACrmC
0 annotated groups 0 'de novo' group(s)	25058	8.33E-03	chr20:4,789,446-4,789,455	10	CTTTCGCTTT	AAAGCGAAAG
0 annotated groups 0 'de novo' group(s)	25337	1.13E-03	chr20:4,789,446-4,789,453	8	TTCGCTTT	AAAGCGAA
0 annotated groups 1 'de novo' group(s) 7041	25644	5.49E-03	chr20:4,789,446-4,789,451	6	CGCTTT	AAAGCG
0 annotated groups 0 'de novo' group(s)	25012	5.49E-03	chr20:4,789,447-4,789,456	10	GCTTTCGCTT	AAGCGAAAGC
0 annotated groups 0 'de novo' group(s)	25186	1.13E-03	chr20:4,789,447-4,789,454	8	TTTCGCTT	AAGCGAAA
0 annotated groups 1 'de novo' group(s) 5813	25488	5.49E-03	chr20:4,789,447-4,789,452	6	TCGCTT	AAGCGA
0 annotated groups 0 'de novo' group(s)	24921	5.49E-03	chr20:4,789,448-4,789,457	10	GGCTTTCGCT	AGCGAAAGCC
0 annotated groups 0 'de novo' group(s)	25142	5.49E-03	chr20:4,789,448-4,789,455	8	CTTTCGCT	AGCGAAAG
0 annotated groups 0 'de novo' group(s)	24966	5.49E-03	chr20:4,789,449-4,789,456	8	GCTTTCGC	GCGAAAGC
0 annotated groups 0 'de novo' group(s)	24875	5.49E-03	chr20:4,789,450-4,789,457	8	GGCTTTCG	CGAAAGCC
0 annotated groups 0 'de novo' group(s)	24850	2.20E-01	chr20:4,789,510-4,789,521	12	wGGGCTCTACTC	GAGTAGAGCCCs
0 annotated groups 0 'de novo' group(s)	24821	2.37E-01	chr20:4,789,800-4,789,811	12	sTrCTGCCCCsA	TwGGGGCAGyAw
0 annotated groups 1 'de novo' group(s) 5199	24785	2.04E-01	chr20:4,789,826-4,789,831	6	ATAAAA	TTTTAT
0 annotated groups 1 'de novo' group(s) 14155	24765	7.85E-02	chr20:4,790,122-4,790,144	23	nCnsGnnGnGTGACGTC...	ACTGyTGACGTCACnCn...
0 annotated groups 1 'de novo' group(s) 9045	24713	1.38E-02	chr20:4,790,178-4,790,190	13	TGAAAGCGAAAGC	GCTTTCGCTTTCA
0 annotated groups 1 'de novo' group(s) 2318	24666	7.04E-02	chr20:4,790,443-4,790,450	8	TTTCACTT	AAGTGAAA
0 annotated groups 1 'de novo' group(s) 7828	24619	2.23E-01	chr20:4,791,314-4,791,325	12	rGGAAGTGrAAG	CTTyCACTTCCy
0 annotated groups 0 'de novo' group(s)	24581	1.06E-01	chr20:4,791,457-4,791,468	12	TACAGwwAGAGG	CCTCTssCTGTA
0 annotated groups 0 'de novo' group(s)	24549	7.71E-02	chr20:4,791,763-4,791,777	15	GGTCTTCCGAAGAAA	TTTCTTCGGAAGACC
0 annotated groups 0 'de novo' group(s)	24506	7.20E-03	chr20:4,791,813-4,791,824	12	wAAnnrAATATA	TATATTynnTTs