Region for Gene F14F3.1b

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 50 out of 50 atomic motifs.

Group(s) crtCele#(name) [p-value]	Motif craCele#	Discovery p-value	Location	Width	(+)motif	(-)motif
0 annotated groups 1 'de novo' group(s) 64	50112	7.51E-01	CHROMOSOME_X:10,513,960-10,513,969	10	GAGTCTCCAC	GTGGAGACTC
0 annotated groups 0 'de novo' group(s)	50113	7.72E-01	CHROMOSOME_X:10,513,969-10,513,982	14	CTGTCATTGACACT	AGTGTCAATGACAG
1 annotated group(s): 40087 (GLI1) [6.58E-06] 3 'de novo' group(s) 20, 33, 961	50114	4.74E-01	CHROMOSOME_X:10,514,079-10,514,090	12	nnGyCACCACCC	GGGTGGTGrCnn
0 annotated groups 0 'de novo' group(s)	50115	7.75E-02	CHROMOSOME_X:10,514,115-10,514,139	25	AGTGTCAATGACAGTAT...	GnGAACTTATACTGTCA...
0 annotated groups 0 'de novo' group(s)	50116	1.69E-01	CHROMOSOME_X:10,514,139-10,514,153	15	TCGGCGAGTGACTTT	AAAGTCACTCGCCGA
0 annotated groups 0 'de novo' group(s)	50117	9.80E-02	CHROMOSOME_X:10,514,157-10,514,166	10	CTTAGTGAAT	ATTCACTAAG
0 annotated groups 0 'de novo' group(s)	50118	1.00E-08	CHROMOSOME_X:10,514,163-10,514,222	60	GAATTATCGAGCGACTA...	CAAAATTGCGATTATGG...
0 annotated groups 0 'de novo' group(s)	50121	3.72E-01	CHROMOSOME_X:10,514,237-10,514,250	14	CCCTCACTTCAGTC	GACTGAAGTGAGGG
0 annotated groups 0 'de novo' group(s)	50122	4.64E-01	CHROMOSOME_X:10,514,252-10,514,263	12	TTAGTyTCTCTG	CAGAGArACTAA
2 annotated group(s): 30003 (15492775-EARLY-1) [2.70E-05] 50014 (Bsap) [6.81E-05] 1 'de novo' group(s) 43	50123	3.16E-01	CHROMOSOME_X:10,514,267-10,514,276	10	GACGCCTCTA	TAGAGGCGTC
0 annotated groups 0 'de novo' group(s)	50124	2.76E-01	CHROMOSOME_X:10,514,336-10,514,343	8	CyGTAnAC	GTnTACrG
0 annotated groups 1 'de novo' group(s) 94	50125	5.35E-01	CHROMOSOME_X:10,514,355-10,514,367	13	GyGTACGGTAnTT	AAnTACCGTACrC
0 annotated groups 0 'de novo' group(s)	50126	7.42E-01	CHROMOSOME_X:10,514,366-10,514,377	12	nTTAATTCGCCT	AGGCGAATTAAn
0 annotated groups 0 'de novo' group(s)	50127	3.16E-01	CHROMOSOME_X:10,514,423-10,514,432	10	CCAATCGTCG	CGACGATTGG
0 annotated groups 1 'de novo' group(s) 7	50128	5.78E-01	CHROMOSOME_X:10,514,428-10,514,441	14	TGTnGTCTTwGTnn	nnACsAAGACnACA
0 annotated groups 0 'de novo' group(s)	50129	4.96E-01	CHROMOSOME_X:10,514,501-10,514,512	12	GsAwATGCAACr	yGTTGCATsTwC
0 annotated groups 0 'de novo' group(s)	50130	2.14E-01	CHROMOSOME_X:10,514,530-10,514,545	16	nCATCCmATATTACAA	TTGTAATATkGGATGn
0 annotated groups 0 'de novo' group(s)	50131	7.72E-01	CHROMOSOME_X:10,514,553-10,514,566	14	CTGTCATTGACACT	AGTGTCAATGACAG
0 annotated groups 3 'de novo' group(s) 396, 862, 2282	50132	3.38E-01	CHROMOSOME_X:10,514,559-10,514,578	20	AnCACrCTCCTACCATCAAT	ATTGATGGTAGGAGyGTGnT
0 annotated groups 0 'de novo' group(s)	50133	7.12E-01	CHROMOSOME_X:10,514,597-10,514,608	12	nnGnGGTGGTGG	CCACCACCnCnn
3 annotated group(s): 50069 (Pax6) [3.29E-06] 40156 (Pax-8) [5.70E-06] 40155 (Pax-6) [7.82E-06] 4 'de novo' group(s) 23, 155, 742, 1828	50134	1.00E-08	CHROMOSOME_X:10,514,615-10,514,654	40	CATTCACGCTTGACTGA...	AGAGGTTATCTGATAAA...
1 annotated group(s): 30010 (ELT-2) [1.12E-04] 9 'de novo' group(s) 1, 6, 15, 82, 182, 2824, 2955, 3016, 2233	50137	1.00E-08	CHROMOSOME_X:10,514,685-10,514,728	44	TCTTATCACATCTCATC...	TTCGTGGTCCACTGCGT...
0 annotated groups 2 'de novo' group(s) 4, 157	50139	7.12E-01	CHROMOSOME_X:10,514,753-10,514,764	12	TnGwCGGACGCC	GGCGTCCGsCnA
0 annotated groups 0 'de novo' group(s)	50140	2.54E-01	CHROMOSOME_X:10,514,783-10,514,797	15	CCCCAAGAGGCnAAT	ATTnGCCTCTTGGGG
0 annotated groups 1 'de novo' group(s) 38	50141	3.16E-01	CHROMOSOME_X:10,514,807-10,514,816	10	TCGGCGAGTG	CACTCGCCGA
0 annotated groups 1 'de novo' group(s) 45	50142	2.05E-01	CHROMOSOME_X:10,514,812-10,514,825	14	GCGGGTCTCGAAAG	CTTTCGAGACCCGC
0 annotated groups 2 'de novo' group(s) 71, 204	50143	8.30E-01	CHROMOSOME_X:10,514,822-10,514,834	13	AArGCkCrGTmAk	mTkACyGmGCyTT
0 annotated groups 0 'de novo' group(s)	50144	6.98E-02	CHROMOSOME_X:10,514,830-10,514,851	22	GTCATAAATATATGAGA...	yAAAGTCTCATATATTT...
0 annotated groups 0 'de novo' group(s)	50145	8.48E-01	CHROMOSOME_X:10,514,845-10,514,858	14	GACkTyGnCGTTCw	sGAACGnCrAmGTC
0 annotated groups 0 'de novo' group(s)	50146	3.16E-01	CHROMOSOME_X:10,514,882-10,514,891	10	CAGAAGCTTC	GAAGCTTCTG
0 annotated groups 0 'de novo' group(s)	50147	5.78E-01	CHROMOSOME_X:10,514,890-10,514,903	14	TGCTTCTGACAACC	GGTTGTCAGAAGCA
2 annotated group(s): 40087 (GLI1) [1.77E-06] 40035 (CACCC-binding_factor) [5.63E-06] 14 'de novo' group(s) 6, 7, 17, 33, 79, 506, 574, 907, 1064, 2528, 2572, 2663, 1625, 2079	50148	7.47E-02	CHROMOSOME_X:10,514,919-10,514,968	50	CAATAATTGGATGGTGT...	CAnnAmGnwGCGGwGrC...
3 annotated group(s): 40217 (ZID) [1.77E-06] 50018 (CREB) [3.04E-06] 40048 (CREB) [4.12E-06] 8 'de novo' group(s) 32, 65, 80, 715, 1401, 2454, 1781, 1896	50151	9.17E-02	CHROMOSOME_X:10,514,979-10,515,032	54	GACGCGCGACGCyGGTG...	nCCTCGGCTTGCCTAGA...
3 annotated group(s): 40217 (ZID) [1.77E-06] 50018 (CREB) [3.04E-06] 40048 (CREB) [4.12E-06] 4 'de novo' group(s) 80, 715, 2454, 1781	50150	4.86E-02	CHROMOSOME_X:10,514,980-10,514,993	14	ACGCGCGACGCTGG	CCAGCGTCGCGCGT
0 annotated groups 6 'de novo' group(s) 37, 77, 292, 626, 1515, 2841	50153	7.43E-02	CHROMOSOME_X:10,515,033-10,515,054	22	GGCTGTTTGCTTACTGC...	AAGGCGCAGTAAGCAAA...
0 annotated groups 6 'de novo' group(s) 7, 42, 91, 578, 2780, 1575	50154	4.99E-02	CHROMOSOME_X:10,515,053-10,515,084	32	ynnCGACGACGTCGTTC...	GTrGAGACTCAGATTGA...
0 annotated groups 0 'de novo' group(s)	50156	2.30E-01	CHROMOSOME_X:10,515,085-10,515,096	12	GTCTTwsTGAAT	ATTCAwsAAGAC
1 annotated group(s): 40066 (Egr-1) [2.28E-06] 4 'de novo' group(s) 43, 1017, 1388, 1716	50157	5.86E-01	CHROMOSOME_X:10,515,092-10,515,152	61	TGAATTCGTCGGACGCC...	nGGAGnATnTTTkknGn...
0 annotated groups 1 'de novo' group(s) 2079	50158	8.75E-02	CHROMOSOME_X:10,515,146-10,515,162	17	TCCTCACATCACTCCyT	ArGGAGTGATGTGAGGA
0 annotated groups 0 'de novo' group(s)	50159	1.00E-08	CHROMOSOME_X:10,515,165-10,515,180	16	TATCTGATTTTGATTG	CAATCAAAATCAGATA
0 annotated groups 0 'de novo' group(s)	50160	9.90E-02	CHROMOSOME_X:10,515,173-10,515,186	14	TTTGATTGCTTCTG	CAGAAGCAATCAAA
0 annotated groups 0 'de novo' group(s)	50161	9.05E-02	CHROMOSOME_X:10,515,179-10,515,195	17	TGCTTCTGACAACCCGA	TCGGGTTGTCAGAAGCA
0 annotated groups 2 'de novo' group(s) 290, 1160	50162	4.32E-01	CHROMOSOME_X:10,515,192-10,515,202	11	nnkACrGTCGG	CCGACyGTmnn
0 annotated groups 0 'de novo' group(s)	50163	8.80E-01	CHROMOSOME_X:10,515,200-10,515,211	12	sCnCAACTACCG	CGGTAGTTGnGw
0 annotated groups 1 'de novo' group(s) 60	50164	3.72E-01	CHROMOSOME_X:10,515,206-10,515,219	14	CwACGGACCGwTTT	AAAsCGGTCCGTsG
0 annotated groups 2 'de novo' group(s) 47, 76	50165	1.40E-01	CHROMOSOME_X:10,515,238-10,515,253	16	ACTGTGCTCCAACrCT	AGyGTTGGAGCACAGT
0 annotated groups 6 'de novo' group(s) 7, 315, 499, 675, 2559, 1604	50166	6.79E-01	CHROMOSOME_X:10,515,277-10,515,304	28	CTACTGTAyTCCATCGT...	CGCnnnnGACGACGATG...
1 annotated group(s): 50038 (Gfi) [8.18E-05] 2 'de novo' group(s) 76, 2132	50167	2.30E-01	CHROMOSOME_X:10,515,304-10,515,321	18	GGATATGCAACGnACnGA	TCnGTnCGTTGCATATCC
0 annotated groups 2 'de novo' group(s) 39, 685	50168	1.98E-01	CHROMOSOME_X:10,515,325-10,515,338	14	GTATACAATArGCG	CGCyTATTGTATAC
0 annotated groups 0 'de novo' group(s)	50169	4.74E-01	CHROMOSOME_X:10,515,338-10,515,345	8	GACAACCy	rGGTTGTC