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[192538_at] Zinc finger, C4 type (two domains)

Description R10D12.2 /REP_DB=WormBase Gene ID /WP=CE12674 /TR=Q9XVK1 /GB=CAB03244.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_total > 01      4grp_total > 28      6grp_cgc > 53      6grp_cgc_sub > 02      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16
1 2 3 4 range
A 6.5
(-2.4)
A 		18.9
(2.3)
A 		5
(-3)
A 		20.6
(3)
A 		16
B 13.4
(2.8)
A 		6.5
(-2.5)
A 		5.9
(-3)
A 		13.6
(3)
A 		8
C 16.9
(3)
A 		9.5
(-1.3)
A 		6.5
(-3)
A 		12.3
(0.3)
A 		10
avr 12.3
(1) 		11.6
(0.6) 		5.8
(-3) 		15.5
(3) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 32
1 2 3 4 5 6 range
A 10.7
(-1.7)
A 		34.2
(3)
A 		4.3
(-3)
A 		7.2
(-2.4)
A 		6.3
(-2.6)
A 		8.6
(-2.1)
A 		30
B 3
(-2.2)
A 		4.2
(-1.3)
A 		9.6
(3)
A 		6.8
(0.8)
A 		2
(-3)
A 		3.2
(-2.1)
A 		8
C 9.2
(1.8)
A 		8.5
(1.1)
A 		4.1
(-3)
A 		10.5
(3)
A 		9
(1.6)
A 		6.5
(-0.8)
A 		6
avr 7.6
(-1.9) 		15.6
(3) 		6
(-2.9) 		8.2
(-1.5) 		5.8
(-3) 		6.1
(-2.8) 		10
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4
1 2 3 4 range
A 2.4
(-0.6)
A 		4.1
(3)
A 		1.3
(-3)
A 		3
(0.6)
A 		3
B 4.3
(3)
A 		1.6
(-2.6)
A 		1.4
(-3)
A 		2.9
(0.1)
A 		3
C 5.6
(3)
A 		2.7
(-2)
A 		2.3
(-2.7)
A 		2.1
(-3)
A 		4
avr 4.1
(3) 		2.8
(-0.3) 		1.7
(-3) 		2.7
(-0.5) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 11
1 2 3 4 5 6 range
A 2
(-2.4)
A 		12.2
(3)
A 		0.9
(-3)
A 		1.8
(-2.5)
A 		1.9
(-2.5)
A 		2.1
(-2.4)
A 		11
B 1
(-2.2)
A 		1.4
(-0.6)
A 		2.3
(3)
A 		1.8
(1)
A 		0.8
(-3)
A 		1.2
(-1.4)
A 		2
C 3.4
(3)
A 		2.6
(1)
A 		1
(-3)
A 		2.1
(-0.3)
A 		2.9
(1.8)
A 		2.2
(0)
A 		2
avr 2.1
(-2) 		5.4
(3) 		1.4
(-3) 		1.9
(-2.3) 		1.9
(-2.3) 		1.8
(-2.4) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192538_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14546
Sequence Type Exemplar sequence
Representative Public ID R10D12.2 NCBI
Target Description R10D12.2 /REP_DB=WormBase Gene ID /WP=CE12674 /TR=Q9XVK1 /GB=CAB03244.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_074056(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074056 NCBI Caenorhabditis elegans Dauer Pheromone Responsive family member (dpr-1) (dpr-1) mRNA, complete cds. 11/11 None
SNAP00000021049 ENSEMBL cdna:SNAP chromosome:CEL140:V:13942785:13944771:-1 11/11 None
GENEFINDER00000021072 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:13942785:13947178:-1 11/11 None
R10D12.2 ENSEMBL cdna:known chromosome:CEL140:V:13942785:13944857:-1 gene:R10D12.2 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:13942784-13944857(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol dpr-1
Ensembl R10D12.2
Entrez Gene 187759 Entrez gene
SwissProt Q9XVK1 EMBL-EBI
WormBase CE12674 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6118 electron transport inferred from electronic annotation QuickGO AmiGO
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
5634 nucleus inferred from direct assay QuickGO AmiGO
5886 plasma membrane inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
3707 steroid hormone receptor activity inferred from electronic annotation QuickGO AmiGO
3707 steroid hormone receptor activity inferred from sequence similarity QuickGO AmiGO
30528 transcription regulator activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB03244 Hypothetical protein R10D12.2 [Caenorhabditis elegans] ref|NP_506457.1| Dauer Pheromone Responsive family member (dpr-1) [Caenorhabditis elegans] 0.0
blast CAB03244 Hypothetical protein R10D12.2 [Caenorhabditis elegans] ref|NP_506457.1| Dauer Pheromone Responsive family member (dpr-1) [Caenorhabditis elegans] 1.0E-165
blast CAB03244 Hypothetical protein R10D12.2 [Caenorhabditis elegans] ref|NP_506457.1| Dauer Pheromone Responsive family member (dpr-1) [Caenorhabditis elegans] 1.0E-151
blast T24113 hypothetical protein R10D12.3 - Caenorhabditis elegans 1.0E-134
blast CAE66190 Hypothetical protein CBG11428 [Caenorhabditis briggsae] 1.0E-122
blast CAE66190 Hypothetical protein CBG11428 [Caenorhabditis briggsae] 8.0E-93
blast CAE66190 Hypothetical protein CBG11428 [Caenorhabditis briggsae] 2.0E-81
blast CAE62521 Hypothetical protein CBG06626 [Caenorhabditis briggsae] 1.0E-64
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.8E-5
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.4E-20
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.1E-5
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.1E-5
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 9.4E-5
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000021072 6 10-32,53-73,83-105,125-147,177-199,220-242
Sequence
Target Sequence 
>C. ELEGANS:192538_AT
gagccgctcccattgagcaagatccatctcaacacgcttggtcaactaaatcaacaaaac
cacgtggaatcagaatttatttgtaaaaactgcccaggaactgatttaataagtacagaa
gataaaatgatattaattcaatacgtgaaatttgcaaatctttggctggacgccttatgg
gatgaacttcatgcgaaagacaaacaagacaaacagaatttagtccactgtggagaattt
gctgactacgacagactcttctctacattcatttcaaacctttacgaaagcgttggtcag
tttctgtgtaatctaaatcttgacattgttgaatattccgccctcaaatcgtttgtcatc
tggaaacttggagttgtagattttagtataaccctgaaaattgttgcccaagagcactat
cttggagtttccgctgcattaatcgaatattataaaactgaaaaaaatatggaagagatg
gaaattgcagttagatttgctgatttgacacttttactcggaccaatttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGCCGCTCCCATTGAGCAAGATCC 111 387 610 Antisense
ATCCATCTCAACACGCTTGGTCAAC 512 39 631 Antisense
GCAAATCTTTGGCTGGACGCCTTAT 20 319 763 Antisense
GGACGCCTTATGGGATGAACTTCAT 383 523 777 Antisense
TGACTACGACAGACTCTTCTCTACA 37 571 852 Antisense
TCTACATTCATTTCAAACCTTTACG 639 609 871 Antisense
GAAAGCGTTGGTCAGTTTCTGTGTA 413 359 895 Antisense
GACATTGTTGAATATTCCGCCCTCA 176 371 931 Antisense
GAGCACTATCTTGGAGTTTCCGCTG 508 389 1021 Antisense
GGAGTTTCCGCTGCATTAATCGAAT 657 509 1033 Antisense
TGACACTTTTACTCGGACCAATTTT 289 563 1115 Antisense
Sequence Source Affymetrix Proprietary Database