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[192497_at] Zinc finger, C4 type (two domains)

Description R04B5.3 /REP_DB=WormBase Gene ID /WP=CE06213 /TR=Q21700 /GB=CAA94839.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_highest_10_10 > 47      6grp_high1_10_10 > 74      4grp_highest_8_8 > 15      4grp_high_8_8 > 14      6grp_highest_nonorm > 92      6grp_total > 64      4grp_total > 10      6grp_cgc > 56      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 211
1 2 3 4 range
A 184.4
(-1.6)
P 		206
(-0.8)
P 		145.2
(-3)
P 		312.8
(3)
P 		168
B 147.8
(-3)
P 		207
(-1.3)
P 		168.7
(-2.4)
P 		355.9
(3)
P 		208
C 217.4
(-1.6)
P 		180.2
(-3)
P 		252.3
(-0.4)
P 		344.7
(3)
P 		165
avr 183.2
(-3) 		197.7
(-2.4) 		188.7
(-2.8) 		337.8
(3) 		155

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 503
1 2 3 4 5 6 range
A 98
(-3)
P 		181.7
(-2)
P 		600.9
(3)
P 		269.4
(-1)
P 		151.4
(-2.4)
P 		319.5
(-0.4)
P 		503
B 162.1
(-2.4)
P 		238.3
(-0.8)
P 		407.4
(2.7)
P 		312.1
(0.7)
P 		132.7
(-3)
P 		424
(3)
P 		291
C 186.4
(-3)
P 		202.8
(-2.7)
P 		321.9
(-0.5)
P 		460.7
(2.1)
P 		186.2
(-3)
P 		508.2
(3)
P 		322
avr 148.8
(-3) 		207.6
(-1.8) 		443.4
(3) 		347.4
(1) 		156.8
(-2.8) 		417.2
(2.5) 		295
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 50
1 2 3 4 range
A 67.1
(3)
P 		44.7
(-1.6)
P 		38
(-3)
P 		45.8
(-1.4)
P 		29
B 47.1
(-1.7)
P 		51.1
(-1)
P 		39.1
(-3)
P 		75.8
(3)
P 		37
C 72
(0.4)
P 		51.8
(-3)
P 		87.9
(3)
P 		58.1
(-2)
P 		36
avr 62.1
(3) 		49.2
(-3) 		55
(-0.3) 		59.9
(2) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 152
1 2 3 4 5 6 range
A 18.1
(-3)
P 		64.6
(-0.5)
P 		130.9
(3)
P 		68.3
(-0.3)
P 		45.7
(-1.5)
P 		77.8
(0.2)
P 		113
B 56.4
(-2.9)
P 		79.3
(-1.5)
P 		98.9
(-0.4)
P 		82.7
(-1.3)
P 		53.9
(-3)
P 		158.1
(3)
P 		104
C 69.1
(-2.5)
P 		61.9
(-2.9)
P 		81.9
(-1.8)
P 		92.6
(-1.2)
P 		60.3
(-3)
P 		170.1
(3)
P 		110
avr 47.9
(-3) 		68.6
(-1.6) 		103.9
(0.8) 		81.2
(-0.7) 		53.3
(-2.6) 		135.3
(3) 		87
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192497_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12060
Sequence Type Exemplar sequence
Representative Public ID R04B5.3 NCBI
Target Description R04B5.3 /REP_DB=WormBase Gene ID /WP=CE06213 /TR=Q21700 /GB=CAA94839.1 /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_073187(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073187 NCBI Caenorhabditis elegans R04B5.3 (R04B5.3) mRNA, complete cds. 11/11 None
SNAP00000020534 ENSEMBL cdna:SNAP chromosome:CEL140:V:10082707:10084265:-1 11/11 None
GENEFINDER00000020548 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:10082707:10084265:-1 11/11 None
R04B5.3 ENSEMBL cdna:known chromosome:CEL140:V:10082707:10084265:-1 gene:R04B5.3 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:10082706-10084265(-) 98.71 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol nhr-205
Ensembl R04B5.3
Entrez Gene 187567 Entrez gene
SwissProt Q21700 EMBL-EBI
WormBase CE06213 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
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
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
3707 steroid hormone receptor activity inferred from electronic annotation QuickGO AmiGO
4879 ligand-dependent nuclear receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA94839 Hypothetical protein R04B5.3 [Caenorhabditis elegans] ref|NP_505588.1| R04B5.3 [Caenorhabditis elegans] 0.0
blast CAE64011 Hypothetical protein CBG08606 [Caenorhabditis briggsae] 1.0E-108
blast CAE64011 Hypothetical protein CBG08606 [Caenorhabditis briggsae] 2.0E-99
blast CAA94840 Hypothetical protein R04B5.4 [Caenorhabditis elegans] ref|NP_505589.1| Nuclear Hormone Receptor family member (nhr-12) [Caenorhabditis elegans] sp|Q21701|NHR12_CAEEL Nuclear hormone receptor family member nhr-12 1.0E-87
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.9E-10
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 5.8E-23
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.9E-10
Sequence
Target Sequence 
>C. ELEGANS:192497_AT
gaaatgtcactggttgctgattggattggatggtgcttcaatgaatttgaatttcttcca
actgatcagaaatcaattcttttctcaaacttttctgtcaattttattgttttggaaaga
gcatttttgacaagtaaacacaataacctaaaccaatgggttttgcaatcgggtgattat
atacaaattgacaaccttgaagaatttttcacagatgaacaactaaaaattgatggtaca
aaacttgccaaacttttcaagccatcactagagcaaaatgataactttcataaacttttg
aagtcagaaaaaattgaaatgtacgattttctggtttttgttgttttattattctgggat
catggaattgttggacaaacagaagagtgccgagaaatatccaaaaagatgaaatcaaat
gttacaaatgaatacatttattatttgaagtatattcaaaaaaatgagaacccagtatgt
cagttgacaatgcttgtgtcgatattaacatgcttgcagagaatcgtctgtcgattacga
gaagatatgtcactcgctcatgtttttgatggttatacgcttccacctaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAATGTCACTGGTTGCTGATTGGA 523 361 553 Antisense
TCTCAAACTTTTCTGTCAATTTTAT 567 611 635 Antisense
CAATGGGTTTTGCAATCGGGTGATT 552 161 706 Antisense
ACTTTTCAAGCCATCACTAGAGCAA 125 103 804 Antisense
AGAAGAGTGCCGAGAAATATCCAAA 369 73 933 Antisense
ATGAGAACCCAGTATGTCAGTTGAC 601 45 1016 Antisense
GTCAGTTGACAATGCTTGTGTCGAT 242 467 1031 Antisense
GTCGATATTAACATGCTTGCAGAGA 330 473 1050 Antisense
GAAGATATGTCACTCGCTCATGTTT 85 339 1093 Antisense
GTCACTCGCTCATGTTTTTGATGGT 207 463 1101 Antisense
TTGATGGTTATACGCTTCCACCTAA 639 705 1118 Antisense
Sequence Source Affymetrix Proprietary Database