Region for Gene F41C6.5

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 C.elegans genome assembly from Jan 2007. (UCSC ce4, WS170, Ensembl v45) 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 73 out of 73 atomic motifs.

Group(s) crtCele#(name) [p-value]	Motif craCele#	Discovery p-value	Location	Width	(+)motif	(-)motif
0 annotated groups 0 'de novo' group(s)	66487	4.65E-01	CHROMOSOME_X:6,877,491-6,877,504	14	CCAyTGGCTwTTCs	wGAAsAGCCArTGG
0 annotated groups 0 'de novo' group(s)	66486	9.88E-01	CHROMOSOME_X:6,877,509-6,877,522	14	GCGTGCCAATATCT	AGATATTGGCACGC
0 annotated groups 0 'de novo' group(s)	66485	8.50E-01	CHROMOSOME_X:6,877,521-6,877,530	10	rGAwTGTkCC	GGmACAsTCy
0 annotated groups 0 'de novo' group(s)	66484	1.02E-01	CHROMOSOME_X:6,877,535-6,877,542	8	GCCCTTTk	mAAAGGGC
1 annotated group(s): 50065 (PPARgamma-RXRal) [2.59E-05] 0 'de novo' group(s)	66483	4.26E-01	CHROMOSOME_X:6,877,556-6,877,568	13	CTTTTTACCTTTC	GAAAGGTAAAAAG
2 annotated group(s): 40053 (DEAF-1) [2.37E-06] 50101 (c-REL) [9.27E-05] 0 'de novo' group(s)	66482	8.83E-01	CHROMOSOME_X:6,877,566-6,877,582	17	TTTTTCTATCTmCACmT	AkGTGkAGATAGAAAAA
2 annotated group(s): 40053 (DEAF-1) [2.37E-06] 50017 (COUP-TF) [5.45E-05] 6 'de novo' group(s) 45, 224, 1056, 1361, 2832, 2106	66481	8.27E-01	CHROMOSOME_X:6,877,590-6,877,636	47	ATAGmAAAGGGCCCCCG...	AGAAAAArGGAAAAGCT...
0 annotated groups 3 'de novo' group(s) 1361, 2832, 2106	66480	6.45E-01	CHROMOSOME_X:6,877,598-6,877,611	14	TCACArGCTTTTCC	GGAAAAGCyTGTGA
0 annotated groups 1 'de novo' group(s) 29	66479	7.86E-01	CHROMOSOME_X:6,877,635-6,877,659	25	TAnGAATACACGCGCAT...	GAGGACAAATGCGCGTG...
1 annotated group(s): 50051 (Irf-2) [2.44E-05] 3 'de novo' group(s) 24, 98, 3248	66478	5.91E-01	CHROMOSOME_X:6,877,664-6,877,684	21	TCTTTTCCCGCCTCTTy...	AGAGrAAGAGGCGGGAA...
1 annotated group(s): 30003 (15492775-EARLY-1) [8.08E-05] 0 'de novo' group(s)	66477	5.78E-01	CHROMOSOME_X:6,877,680-6,877,689	10	CCGyCwCTTT	AAAGsGrCGG
1 annotated group(s): 50014 (Bsap) [5.63E-05] 6 'de novo' group(s) 26, 64, 496, 728, 1301, 2103	66476	5.20E-01	CHROMOSOME_X:6,877,693-6,877,719	27	CGGATCAACCGGTATCC...	GGATAGTGACGGATACC...
1 annotated group(s): 50018 (CREB) [6.37E-05] 2 'de novo' group(s) 62, 1458	66475	6.82E-01	CHROMOSOME_X:6,877,716-6,877,736	21	CAACGAACGTCnATCGG...	TGATCCGATnGACGTTC...
5 annotated group(s): 40066 (Egr-1) [8.36E-06] 40066 (Egr-1) [8.59E-06] 40058 (E2F-1) [9.55E-06] ... 6 'de novo' group(s) 33, 167, 244, 1164, 1508, 2270	66474	9.70E-01	CHROMOSOME_X:6,877,734-6,877,768	35	kmTkwkyGmkGrGyGnT...	ykknkGyGGCCCrCCGC...
0 annotated groups 0 'de novo' group(s)	66473	5.78E-01	CHROMOSOME_X:6,877,767-6,877,787	21	CGCGTGCCAATATCTTT...	TCAAAAAGATATTGGCA...
0 annotated groups 1 'de novo' group(s) 33	66472	8.62E-01	CHROMOSOME_X:6,877,783-6,877,798	16	CCACCCAAAAAGTnGT	ACnACTTTTTGGGTGG
1 annotated group(s): 50047 (HNF-3beta) [5.67E-05] 1 'de novo' group(s) 33	66471	5.53E-01	CHROMOSOME_X:6,877,792-6,877,815	24	GTTTGTTTGAAACATTT...	TGGGTGGAAATGTTTCA...
0 annotated groups 0 'de novo' group(s)	66470	4.58E-01	CHROMOSOME_X:6,877,794-6,877,803	10	CATTTyCACC	GGTGrAAATG
1 annotated group(s): 50092 (Thing1-E47) [7.20E-05] 1 'de novo' group(s) 62	66469	8.66E-01	CHROMOSOME_X:6,877,818-6,877,835	18	kACGTTCGTTkkkGGCCC	GGGCCmmmAACGAACGTm
0 annotated groups 1 'de novo' group(s) 358	66468	9.10E-01	CHROMOSOME_X:6,877,832-6,877,844	13	GTswwGGTTTTGC	GCAAAACCsswAC
1 annotated group(s): 50051 (Irf-2) [7.87E-05] 0 'de novo' group(s)	66467	5.02E-01	CHROMOSOME_X:6,877,845-6,877,859	15	CGATTTCGATTTCTG	CAGAAATCGAAATCG
0 annotated groups 3 'de novo' group(s) 9, 87, 1162	66466	5.45E-01	CHROMOSOME_X:6,877,870-6,877,883	14	yTTTTACCTkTCkT	AmGAmAGGTAAAAr
0 annotated groups 1 'de novo' group(s) 695	66465	9.24E-01	CHROMOSOME_X:6,877,876-6,877,900	25	CTTTGTATAGTAGTAAA...	AnksnnCGTTTACTACT...
0 annotated groups 0 'de novo' group(s)	66464	1.00E-08	CHROMOSOME_X:6,877,905-6,877,910	6	TAGTCA	TGACTA
1 annotated group(s): 30013 (UNC-30) [1.47E-04] 1 'de novo' group(s) 293	66463	9.97E-01	CHROMOSOME_X:6,877,946-6,877,955	10	TsGrTwwTCG	CGAssAyCwA
0 annotated groups 1 'de novo' group(s) 2952	66462	5.92E-01	CHROMOSOME_X:6,877,954-6,877,977	24	nAGTTCACGAACCATTG...	CAnAAGyCAATGGTTCG...
0 annotated groups 0 'de novo' group(s)	66461	4.59E-02	CHROMOSOME_X:6,877,966-6,877,971	6	ACGArC	GyTCGT
1 annotated group(s): 50059 (Myc-Max) [9.91E-05] 0 'de novo' group(s)	66460	1.96E-01	CHROMOSOME_X:6,877,970-6,877,983	14	CmTATTyAGTTCAy	rTGAACTrAATAkG
1 annotated group(s): 50101 (c-REL) [5.63E-05] 0 'de novo' group(s)	66459	5.01E-01	CHROMOSOME_X:6,877,983-6,877,990	8	GmAAAACC	GGTTTTkC
0 annotated groups 0 'de novo' group(s)	66458	9.60E-01	CHROMOSOME_X:6,877,991-6,878,008	18	nCGnACTTCTATTTACAG	CTGTAAATAGAAGTnCGn
0 annotated groups 3 'de novo' group(s) 14, 2769, 1897	66457	9.14E-01	CHROMOSOME_X:6,878,003-6,878,019	17	TmCCTTTCGAnmyGnAm	kTnCrknTCGAAAGGkA
0 annotated groups 3 'de novo' group(s) 14, 2769, 1897	66456	6.78E-01	CHROMOSOME_X:6,878,006-6,878,019	14	TCACTTTCkATwCG	CGsATmGAAAGTGA
0 annotated groups 2 'de novo' group(s) 29, 860	66455	9.27E-01	CHROMOSOME_X:6,878,041-6,878,070	30	GTrTCTCTTTAGGCGTG...	snAsrAArrmsGACACG...
0 annotated groups 0 'de novo' group(s)	66454	2.56E-01	CHROMOSOME_X:6,878,061-6,878,070	10	GTGTCTmTTT	AAAkAGACAC
2 annotated group(s): 40046 (COUP-TF2) [3.30E-06] 50014 (Bsap) [2.30E-05] 3 'de novo' group(s) 270, 374, 1942	66453	7.56E-01	CHROMOSOME_X:6,878,085-6,878,139	55	AACTTGATTATATGCTT...	ArGAAAGTGCGAAGGGT...
1 annotated group(s): 50014 (Bsap) [2.30E-05] 0 'de novo' group(s)	66451	1.00E-08	CHROMOSOME_X:6,878,102-6,878,114	13	GTCAAGTCTTGAC	GTCAAGACTTGAC
2 annotated group(s): 40046 (COUP-TF2) [3.30E-06] 50072 (RORalfa-2) [4.05E-05] 1 'de novo' group(s) 2612	66450	8.01E-01	CHROMOSOME_X:6,878,140-6,878,160	21	TrGATCwTTTGrTCAGT...	TykAACTGAyCAAAsGA...
0 annotated groups 0 'de novo' group(s)	66449	9.86E-01	CHROMOSOME_X:6,878,219-6,878,228	10	GATmAACCGr	yCGGTTkATC
1 annotated group(s): 30007 (CHE-1) [1.32E-04] 0 'de novo' group(s)	66448	9.08E-01	CHROMOSOME_X:6,878,244-6,878,251	8	CCGGTATC	GATACCGG
1 annotated group(s): 30007 (CHE-1) [1.32E-04] 0 'de novo' group(s)	66447	5.85E-01	CHROMOSOME_X:6,878,251-6,878,264	14	yCrAAACGAAAkTs	wAmTTTCGTTTyGr
0 annotated groups 0 'de novo' group(s)	66446	2.68E-01	CHROMOSOME_X:6,878,265-6,878,276	12	CTAwGAAGAmTC	GAkTCTTCsTAG
0 annotated groups 0 'de novo' group(s)	66445	4.95E-01	CHROMOSOME_X:6,878,311-6,878,322	12	TGrCyGTTTTmT	AkAAAACrGyCA
0 annotated groups 0 'de novo' group(s)	66444	8.67E-01	CHROMOSOME_X:6,878,328-6,878,341	14	AAAyArAAGyGCGT	ACGCrCTTyTrTTT
0 annotated groups 0 'de novo' group(s)	66443	7.95E-01	CHROMOSOME_X:6,878,352-6,878,365	14	AwArCywwGACAnk	mnTGTCssrGyTsT
0 annotated groups 1 'de novo' group(s) 23	66442	6.68E-01	CHROMOSOME_X:6,878,387-6,878,396	10	rAAkmAACCG	CGGTTkmTTy
0 annotated groups 0 'de novo' group(s)	66441	3.16E-01	CHROMOSOME_X:6,878,418-6,878,425	8	TCAAGACT	AGTCTTGA
0 annotated groups 1 'de novo' group(s) 59	66440	6.70E-01	CHROMOSOME_X:6,878,433-6,878,446	14	GkykTyGsGTGCmA	TkGCACwCrAmrmC
0 annotated groups 0 'de novo' group(s)	66439	4.59E-02	CHROMOSOME_X:6,878,445-6,878,450	6	TATwGG	CCsATA
0 annotated groups 0 'de novo' group(s)	66438	8.76E-01	CHROMOSOME_X:6,878,452-6,878,464	13	TGAwkAyATGCTT	AAGCATrTmsTCA
0 annotated groups 0 'de novo' group(s)	66437	9.27E-01	CHROMOSOME_X:6,878,498-6,878,510	13	TTAGsCGkCATCT	AGATGmCGwCTAA
0 annotated groups 0 'de novo' group(s)	66436	1.00E-08	CHROMOSOME_X:6,878,514-6,878,519	6	GATGAG	CTCATC
0 annotated groups 0 'de novo' group(s)	66435	1.39E-01	CHROMOSOME_X:6,878,519-6,878,526	8	TTGTTTwG	CsAAACAA
0 annotated groups 0 'de novo' group(s)	66434	5.86E-01	CHROMOSOME_X:6,878,543-6,878,554	12	sACAAGCTTkkC	GmmAAGCTTGTw
0 annotated groups 0 'de novo' group(s)	66433	9.53E-01	CHROMOSOME_X:6,878,555-6,878,564	10	ACGGATwyCG	CGrsATCCGT
0 annotated groups 0 'de novo' group(s)	66432	5.96E-01	CHROMOSOME_X:6,878,583-6,878,594	12	kATmTwGkAAyG	CrTTmCsAkATm
0 annotated groups 0 'de novo' group(s)	66431	9.08E-01	CHROMOSOME_X:6,878,590-6,878,601	12	GTGCCAATATCT	AGATATTGGCAC
1 annotated group(s): 40150 (p300) [2.03E-06] 0 'de novo' group(s)	66430	7.95E-01	CHROMOSOME_X:6,878,604-6,878,617	14	CkTnTACTrCyATA	TATrGyAGTAnAmG
0 annotated groups 0 'de novo' group(s)	66429	3.79E-01	CHROMOSOME_X:6,878,623-6,878,632	10	ArCAAAGkGC	GCmCTTTGyT
0 annotated groups 1 'de novo' group(s) 207	66428	8.45E-01	CHROMOSOME_X:6,878,648-6,878,662	15	AAGCATATArTCAwG	CsTGAyTATATGCTT
0 annotated groups 0 'de novo' group(s)	66427	9.86E-01	CHROMOSOME_X:6,878,703-6,878,716	14	ACCACTmTACAAAr	yTTTGTAkAGTGGT
1 annotated group(s): 40043 (COMP1) [8.59E-06] 0 'de novo' group(s)	66426	1.00E-01	CHROMOSOME_X:6,878,731-6,878,738	8	TAAATAGG	CCTATTTA
3 annotated group(s): 50043 (HLF) [1.01E-06] 40064 (E4BP4) [9.87E-06] 50025 (E4BP4) [4.50E-05] 0 'de novo' group(s)	66425	8.56E-01	CHROMOSOME_X:6,878,785-6,878,794	10	GAyTwCAyGC	GCrTGsArTC
0 annotated groups 1 'de novo' group(s) 76	66424	8.22E-01	CHROMOSOME_X:6,878,792-6,878,801	10	ACCGGTTGAT	ATCAACCGGT
0 annotated groups 0 'de novo' group(s)	66423	8.22E-01	CHROMOSOME_X:6,878,812-6,878,826	15	TACTACTATACAAAG	CTTTGTATAGTAGTA
0 annotated groups 0 'de novo' group(s)	66422	5.40E-01	CHROMOSOME_X:6,878,838-6,878,848	11	TCGGTTTmTyT	ArAkAAACCGA
0 annotated groups 0 'de novo' group(s)	66421	2.93E-01	CHROMOSOME_X:6,878,862-6,878,869	8	CCTTTkCT	AGmAAAGG
0 annotated groups 0 'de novo' group(s)	66420	4.31E-01	CHROMOSOME_X:6,878,874-6,878,887	14	AAkTGTGATGAGAT	ATCTCATCACAmTT
0 annotated groups 0 'de novo' group(s)	66419	8.38E-01	CHROMOSOME_X:6,878,883-6,878,907	25	TyGrAAGGwATAAAACG...	mACTTkGCCGTTTTATs...
0 annotated groups 0 'de novo' group(s)	66418	9.96E-01	CHROMOSOME_X:6,878,904-6,878,917	14	CGAACGTCnATCGG	CCGATnGACGTTCG
0 annotated groups 0 'de novo' group(s)	66417	4.60E-01	CHROMOSOME_X:6,878,910-6,878,930	21	yTTTGATGACTTGAAAA...	GTCATTTTCAAGTCATC...
1 annotated group(s): 30007 (CHE-1) [1.21E-04] 2 'de novo' group(s) 24, 710	66416	6.82E-01	CHROMOSOME_X:6,878,927-6,878,940	14	TAGGCGGCwTCTTT	AAAGAsGCCGCCTA
0 annotated groups 0 'de novo' group(s)	66415	9.43E-01	CHROMOSOME_X:6,878,955-6,878,964	10	GGyGsCTTyT	ArAAGwCrCC
0 annotated groups 0 'de novo' group(s)	66414	3.10E-01	CHROMOSOME_X:6,878,973-6,878,986	14	CATTCTACAAATGT	ACATTTGTAGAATG