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[192688_at] Zinc finger, C4 type (two domains)

Description T06C12.13 /REP_DB=WormBase Gene ID /WP=CE16363 /TR=O18048 /GB=CAB03309.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_highest_10_10 > 62      6grp_high1_10_10 > 26      4grp_highest_8_8 > 54      4grp_high_8_8 > 10      6grp_highest_nonorm > 90      6grp_total > 16      4grp_total > 22      6grp_highest_sub > Cu      6grp_cgc > 24      6grp_high1_sub > De      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 328
1 2 3 4 range
A 321.4
(2.7)
P 		95.9
(-2.8)
P 		86.7
(-3)
P 		332.9
(3)
P 		246
B 309.7
(2.8)
P 		188.3
(-0.6)
P 		100.6
(-3)
P 		317.3
(3)
P 		217
C 361.5
(1.9)
P 		144.3
(-2.6)
P 		122.7
(-3)
P 		415.1
(3)
P 		292
avr 330.9
(2.4) 		142.8
(-2.1) 		103.3
(-3) 		355.1
(3) 		252

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 231
1 2 3 4 5 6 range
A 261.7
(3)
P 		212.1
(1.3)
P 		187.7
(0.5)
P 		118.2
(-1.9)
P 		85
(-3)
P 		102.3
(-2.4)
P 		177
B 315.9
(3)
P 		209.4
(0.1)
P 		180.6
(-0.7)
P 		107.6
(-2.7)
P 		97.5
(-3)
P 		127.6
(-2.2)
P 		218
C 267.3
(3)
P 		212
(1.1)
P 		148.2
(-1)
P 		96
(-2.8)
P 		90.2
(-3)
P 		184.2
(0.2)
P 		177
avr 281.6
(3) 		211.2
(0.8) 		172.2
(-0.4) 		107.3
(-2.5) 		90.9
(-3) 		138
(-1.5) 		191
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 99
1 2 3 4 range
A 117
(3)
P 		20.8
(-3)
P 		22.7
(-2.9)
P 		48.7
(-1.3)
P 		96
B 98.8
(3)
P 		46.5
(-1.2)
P 		23.3
(-3)
P 		67.6
(0.5)
P 		76
C 119.7
(3)
P 		41.5
(-3)
P 		42.8
(-2.9)
P 		70
(-0.8)
P 		78
avr 111.8
(3) 		36.3
(-2.5) 		29.6
(-3) 		62.1
(-0.6) 		82

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 91
1 2 3 4 5 6 range
A 48.2
(-0.2)
P 		75.4
(3)
P 		40.9
(-1.1)
P 		30
(-2.4)
P 		25.6
(-2.9)
P 		24.9
(-3)
P 		51
B 109.9
(3)
P 		69.7
(0)
P 		43.9
(-1.9)
P 		28.5
(-3)
P 		39.6
(-2.2)
P 		47.6
(-1.6)
P 		81
C 99.1
(3)
P 		64.7
(0.4)
P 		37.7
(-1.6)
P 		19.3
(-3)
P 		29.2
(-2.3)
P 		61.7
(0.2)
P 		80
avr 85.7
(3) 		69.9
(1.4) 		40.8
(-1.5) 		25.9
(-3) 		31.5
(-2.4) 		44.7
(-1.1) 		60
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192688_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12570
Sequence Type Exemplar sequence
Representative Public ID T06C12.13 NCBI
Target Description T06C12.13 /REP_DB=WormBase Gene ID /WP=CE16363 /TR=O18048 /GB=CAB03309.1 /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_074573(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074573 NCBI Caenorhabditis elegans T06C12.13 (T06C12.13) mRNA, complete cds. 11/11 None
SNAP00000035470 ENSEMBL cdna:SNAP chromosome:CEL140:V:15897080:15899348:-1 11/11 None
GENEFINDER00000035479 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:15897080:15899348:-1 11/11 None
T06C12.13 ENSEMBL cdna:known chromosome:CEL140:V:15897080:15899348:-1 gene:T06C12.13 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:15897079-15899348(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol nhr-213
Ensembl T06C12.13
Entrez Gene 188172 Entrez gene
SwissProt O18048 EMBL-EBI
WormBase CE16363 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
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
3707 steroid hormone receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB03309 Hypothetical protein T06C12.13 [Caenorhabditis elegans] ref|NP_506974.1| T06C12.13 [Caenorhabditis elegans] 0.0
blast CAB03298 Hypothetical protein T06C12.6 [Caenorhabditis elegans] ref|NP_506967.1| Nuclear Hormone Receptor family member (nhr-102) [Caenorhabditis elegans] 1.0E-156
blast AAO39190 nuclear receptor NHR-102 [Caenorhabditis elegans] 1.0E-156
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 8.3E-4
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.4E-24
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 8.3E-4
Sequence
Target Sequence 
>C. ELEGANS:192688_AT
ggtatggaacatgtggcgccgattcgagcgttttgaaatgtctgtgaaaatgttcggaaa
tcaggtattaaccaaaaggaaatttgcgatctcaaacgagaagcttatggttatggattc
ttgcatcgactactcggagattaccgatctaccaaacagtaaagtagcagaaatgttccg
tctgacaaggtcaaagctgttccatcagctagcaaaaccactgatggaattaaatccttc
atcgattgagatggcctacatgttgactcaattaagttggcaaattgcaggcaaaaaaat
gcaaggaaatgtgattgaaatcggcgagcgagtctgtgacaatttggctgacgatcttca
tagctactatcaaaagaatgaaaaaagatcgaattatgcaggacgtctagttcgattgat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGTATGGAACATGTGGCGCCGATTC 24 505 720 Antisense
GTGGCGCCGATTCGAGCGTTTTGAA 615 491 732 Antisense
GATTCTTGCATCGACTACTCGGAGA 269 431 835 Antisense
GAAATGTTCCGTCTGACAAGGTCAA 96 361 889 Antisense
GACAAGGTCAAAGCTGTTCCATCAG 300 361 903 Antisense
TGTTCCATCAGCTAGCAAAACCACT 370 563 917 Antisense
GATGGCCTACATGTTGACTCAATTA 609 405 969 Antisense
GAAATCGGCGAGCGAGTCTGTGACA 263 363 1036 Antisense
TGTGACAATTTGGCTGACGATCTTC 406 553 1054 Antisense
GCTGACGATCTTCATAGCTACTATC 661 295 1066 Antisense
ATGCAGGACGTCTAGTTCGATTGAT 228 43 1115 Antisense
Sequence Source Affymetrix Proprietary Database