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[193658_at] Zinc finger, C4 type (two domains)

Description Y51A2D.17 /REP_DB=WormBase Gene ID /WP=CE22324 /GEN=nhr-70 /TR=Q9XTG0 /GB=CAB11571.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_highest_10_10 > 72      6grp_high1_10_10 > 28      4grp_highest_8_8 > 38      4grp_high_8_8 > 03      6grp_highest_nonorm > 50      6grp_total > 17      4grp_total > 05      6grp_highest_sub > Cu      6grp_cgc > 06      6grp_high1_sub > De      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 629
1 2 3 4 range
A 677
(-0.9)
P 		543.9
(-2.3)
P 		474.1
(-3)
P 		1040.7
(3)
P 		567
B 547.6
(0.3)
P 		453.9
(-3)
P 		484.9
(-1.9)
P 		621.9
(3)
P 		168
C 531.9
(1)
P 		411.5
(-3)
P 		448.8
(-1.8)
P 		592.9
(3)
P 		181
avr 585.5
(-0.5) 		469.8
(-3) 		469.3
(-3) 		751.8
(3) 		283

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 288
1 2 3 4 5 6 range
A 659.2
(3)
P 		482.9
(-0.8)
P 		497.4
(-0.5)
P 		418.9
(-2.2)
P 		382.2
(-3)
P 		451.8
(-1.5)
P 		277
B 569
(3)
P 		429.1
(-1.3)
P 		371.5
(-3)
P 		401.7
(-2.1)
P 		379.8
(-2.7)
P 		498.5
(0.9)
P 		198
C 630.7
(3)
P 		424.5
(-1.9)
P 		385.2
(-2.9)
P 		401
(-2.5)
P 		379.9
(-3)
P 		403.7
(-2.4)
P 		251
avr 619.6
(3) 		445.5
(-1.4) 		418
(-2.1) 		407.2
(-2.3) 		380.6
(-3) 		451.3
(-1.2) 		239
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 147
1 2 3 4 range
A 246.5
(3)
P 		118.1
(-3)
P 		123.9
(-2.7)
P 		152.3
(-1.4)
P 		128
B 174.6
(3)
P 		112.1
(-3)
P 		112.4
(-3)
P 		132.5
(-1)
P 		63
C 176.1
(3)
P 		118.3
(-1.6)
P 		156.4
(1.4)
P 		100
(-3)
P 		76
avr 199.1
(3) 		116.2
(-3) 		130.9
(-1.9) 		128.3
(-2.1) 		83

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 153
1 2 3 4 5 6 range
A 121.5
(-1.6)
P 		171.7
(3)
P 		108.3
(-2.8)
P 		106.3
(-3)
P 		115.3
(-2.2)
P 		110
(-2.7)
P 		65
B 198
(3)
P 		142.8
(-0.1)
P 		90.2
(-3)
P 		106.4
(-2.1)
P 		154.3
(0.6)
P 		185.9
(2.3)
P 		108
C 233.8
(3)
P 		129.5
(-1.1)
P 		98.1
(-2.3)
P 		80.6
(-3)
P 		122.9
(-1.3)
P 		135.2
(-0.9)
P 		153
avr 184.4
(3) 		148
(0.5) 		98.9
(-2.9) 		97.8
(-3) 		130.8
(-0.7) 		143.7
(0.2) 		87
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193658_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13763
Sequence Type Exemplar sequence
Representative Public ID Y51A2D.17 NCBI
Target Description Y51A2D.17 /REP_DB=WormBase Gene ID /WP=CE22324 /GEN=nhr-70 /TR=Q9XTG0 /GB=CAB11571.1 /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_075235(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075235 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-70) (nhr-70) mRNA, complete cds. 11/11 None
SNAP00000002593 ENSEMBL cdna:SNAP chromosome:CEL140:V:18621028:18633024:1 9/11 None
GENEFINDER00000002609 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:18621028:18622617:1 9/11 None
Y51A2D.17 ENSEMBL cdna:known chromosome:CEL140:V:18619174:18622814:1 gene:Y51A2D.17 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:18619182-18622617(+) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol nhr-70
Ensembl Y51A2D.17
Entrez Gene 180217 Entrez gene
SwissProt Q9XTG0 EMBL-EBI
WormBase CE22324 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 CAB11571 Hypothetical protein Y51A2D.17 [Caenorhabditis elegans] emb|CAA16413.1| Hypothetical protein Y51A2D.17 [Caenorhabditis elegans] ref|NP_507636.1| Nuclear Hormone Receptor family member (nhr-70) [Caenorhabditis elegans] 0.0
blast AAG15172 nuclear receptor NHR-70 [Caenorhabditis elegans] 0.0
blast AAG15171 nuclear receptor NHR-70 [Caenorhabditis elegans] 0.0
blast CAB11571 Hypothetical protein Y51A2D.17 [Caenorhabditis elegans] emb|CAA16413.1| Hypothetical protein Y51A2D.17 [Caenorhabditis elegans] ref|NP_507636.1| Nuclear Hormone Receptor family member (nhr-70) [Caenorhabditis elegans] 9.0E-80
blast AAG15172 nuclear receptor NHR-70 [Caenorhabditis elegans] 9.0E-80
blast AAG15171 nuclear receptor NHR-70 [Caenorhabditis elegans] 9.0E-80
blast CAB11571 Hypothetical protein Y51A2D.17 [Caenorhabditis elegans] emb|CAA16413.1| Hypothetical protein Y51A2D.17 [Caenorhabditis elegans] ref|NP_507636.1| Nuclear Hormone Receptor family member (nhr-70) [Caenorhabditis elegans] 6.0E-76
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.3E-38
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.1E-28
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.8E-25
Sequence
Target Sequence 
>C. ELEGANS:193658_AT
ttgccattcgtgattctccagggcggtcattttgcgtgtattcataaccgtagtgacgtc
ataattctagcgtcaggtgactacatcgactgctcgcacccggagacgttctactacgac
ccagacggccgccagctcatgtcttcagaggatgcagtcagaatgtttgcatcgagtttc
agtatttaccggcgaaatgtcacagatccgatgctccgggataatgtggacagttttgag
tttttcgcgctttgctcattggttttatttgatactggcctggaaggacaatctgaggag
tgtattcgggtctcgcgacgaattcgagaggcgattcagcgagagatactgtaccactat
cggaatgtgagacatattgaggacccgtcgatgaggctggcgaatttactgtctttgttg
ccagcgttgcagagagccacccgccgattccaggaagacgtagaaatttcacacgtcttc
aatgtctactcagtgga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTGCCATTCGTGATTCTCCAGGGCG 566 701 649 Antisense
TCCAGGGCGGTCATTTTGCGTGTAT 396 587 665 Antisense
TCAGGTGACTACATCGACTGCTCGC 45 623 721 Antisense
GCATCGAGTTTCAGTATTTACCGGC 281 307 817 Antisense
ATGTCACAGATCCGATGCTCCGGGA 87 47 845 Antisense
GACAGTTTTGAGTTTTTCGCGCTTT 457 369 877 Antisense
TTCGCGCTTTGCTCATTGGTTTTAT 595 697 892 Antisense
TGAGGAGTGTATTCGGGTCTCGCGA 409 567 942 Antisense
GAGGCTGGCGAATTTACTGTCTTTG 708 405 1041 Antisense
TACTGTCTTTGTTGCCAGCGTTGCA 225 647 1055 Antisense
ACGTCTTCAATGTCTACTCAGTGGA 457 93 1121 Antisense
Sequence Source Affymetrix Proprietary Database