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[190018_at] zinc finger protein

Description K12H6.1 /REP_DB=WormBase Gene ID /WP=CE28062 /TR=Q9N5H9 /GB=AAK68390.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_total > 02      4grp_total > 33      6grp_cgc > 52      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 100
1 2 3 4 range
A 157.9
(-3)
A 		177.3
(-0.5)
P 		204.1
(3)
A 		203.4
(2.9)
A 		46
B 136.3
(-3)
A 		236.6
(3)
P 		167.8
(-1.1)
A 		163.6
(-1.4)
M 		100
C 193.1
(-0)
A 		174.6
(-3)
P 		181
(-2)
A 		212.2
(3)
P 		38
avr 162.4
(-3) 		196.2
(3) 		184.3
(0.9) 		193.1
(2.4) 		34

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 147
1 2 3 4 5 6 range
A 162.2
(2)
A 		135.3
(0.5)
A 		70.8
(-3)
A 		181.3
(3)
A 		90.5
(-1.9)
A 		131.1
(0.3)
A 		111
B 118.3
(-2.4)
A 		162.5
(3)
A 		118.6
(-2.4)
A 		130.8
(-0.9)
A 		135.1
(-0.4)
A 		113.8
(-3)
A 		49
C 154.5
(-1.3)
P 		217.9
(3)
M 		193.3
(1.3)
A 		141.1
(-2.2)
A 		165.3
(-0.6)
P 		129.3
(-3)
P 		89
avr 145
(-0.4) 		171.9
(3) 		127.6
(-2.6) 		151.1
(0.4) 		130.3
(-2.3) 		124.7
(-3) 		47
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 34
1 2 3 4 range
A 57.5
(3)
A 		38.5
(-1.1)
P 		53.4
(2.1)
A 		29.8
(-3)
A 		28
B 43.5
(-0.8)
A 		58.4
(3)
P 		38.9
(-2)
A 		34.9
(-3)
M 		24
C 63.9
(3)
A 		50.2
(0.1)
P 		63.1
(2.8)
A 		35.8
(-3)
P 		28
avr 55
(3) 		49
(1.3) 		51.8
(2.1) 		33.5
(-3) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 51
1 2 3 4 5 6 range
A 29.9
(-0.3)
A 		48.1
(3)
A 		15.4
(-3)
A 		46
(2.6)
A 		27.3
(-0.8)
A 		31.9
(0)
A 		33
B 41.1
(-0.2)
A 		54.1
(2.8)
A 		28.8
(-3)
A 		34.6
(-1.7)
A 		54.9
(3)
A 		42.4
(0.1)
A 		26
C 57.3
(1.6)
P 		66.5
(3)
M 		49.2
(0.3)
A 		28.4
(-3)
A 		53.5
(1)
P 		43.3
(-0.7)
P 		38
avr 42.8
(-0.2) 		56.2
(3) 		31.1
(-3) 		36.3
(-1.8) 		45.2
(0.4) 		39.2
(-1.1) 		25
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190018_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5554
Sequence Type Exemplar sequence
Representative Public ID K12H6.1 NCBI
Target Description K12H6.1 /REP_DB=WormBase Gene ID /WP=CE28062 /TR=Q9N5H9 /GB=AAK68390.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=zinc finger protein
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_061967(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061967 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-119) (nhr-119) mRNA, complete cds. 11/11 A 
SNAP00000024506 ENSEMBL cdna:SNAP chromosome:CEL140:II:2799043:2800581:-1 10/11 None
GENEFINDER00000024528 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:2798800:2800581:-1 10/11 None
K12H6.1 ENSEMBL cdna:known chromosome:CEL140:II:2797501:2800548:-1 gene:K12H6.1 11/11 A 
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
chrII:2799041-2800547(-) 100.0 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhr-119
Ensembl K12H6.1
Entrez Gene 187340 Entrez gene
SwissProt Q9N5H9 EMBL-EBI
WormBase CE28062 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 NP_494368 Nuclear Hormone Receptor family member (nhr-119) [Caenorhabditis elegans] gb|AAK68390.1| Nuclear hormone receptor family protein 119 [Caenorhabditis elegans] 0.0
blast CAE72428 Hypothetical protein CBG19594 [Caenorhabditis briggsae] 0.0
blast NP_494368 Nuclear Hormone Receptor family member (nhr-119) [Caenorhabditis elegans] gb|AAK68390.1| Nuclear hormone receptor family protein 119 [Caenorhabditis elegans] 1.0E-104
blast CAE72428 Hypothetical protein CBG19594 [Caenorhabditis briggsae] 1.0E-101
blast CAE72428 Hypothetical protein CBG19594 [Caenorhabditis briggsae] 1.0E-100
blast CAE70940 Hypothetical protein CBG17744 [Caenorhabditis briggsae] 9.0E-83
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 7.1E-21
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.9E-22
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.7E-9
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 5.2E-38
Sequence
Target Sequence 
>C. ELEGANS:190018_AT
cctccatttccagaaagtcctctttaagccaaatcgcgtcacattctggcggcagtgaca
cttgtaaagtatgtggagatggaaacgcaaaaacccattacggagtcgtcacatgcttcg
gatgtaagggattcttccggagaacgctgaaaagaccctccgagtacacgtgtaggcata
atggacactgtgttgtggataggcatgagaggaattcttgcagatttttttcgaattttt
tattcctaaaaaattttttaattcccaaaacttccagattctgccgtttcaaaaagtgca
tcgaagtgggtatggatccaaaagctgtccgtcctgatcgagatgccaccggccgacatt
atcagggccgtcagagacgatcaaaactttcagcagaggatgagggggaggtcgatgcgg
aatggatgagaaaactgccagttgacatgagaaccactttgatgcaattgttaaatatcg
atcttattgttggtggaggtgatgggcatactgaaccatcgaaaatctacccattaccct
ttgccacatcgataaggcagctgttggaggacccgac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCTCCATTTCCAGAAAGTCCTCTTT 433 265 20 Antisense
AGTCCTCTTTAAGCCAAATCGCGTC 374 59 35 Antisense
CAAATCGCGTCACATTCTGGCGGCA 536 191 49 Antisense
TTACGGAGTCGTCACATGCTTCGGA 515 679 117 Antisense
GAGAACGCTGAAAAGACCCTCCGAG 353 391 159 Antisense
ACCCTCCGAGTACACGTGTAGGCAT 443 1 174 Antisense
TTCCAGATTCTGCCGTTTCAAAAAG 138 699 291 Antisense
GATCCAAAAGCTGTCCGTCCTGATC 702 393 334 Antisense
GCCACCGGCCGACATTATCAGGGCC 296 279 364 Antisense
CATTACCCTTTGCCACATCGATAAG 556 215 551 Antisense
TAAGGCAGCTGTTGGAGGACCCGAC 228 637 572 Antisense
Sequence Source Affymetrix Proprietary Database