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[192488_at] Zinc finger, C4 type (two domains)

Description T13F3.3 /REP_DB=WormBase Gene ID /WP=CE16409 /TR=O18087 /GB=CAB07671.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_high1_10_10 > 55      6grp_total > 64      4grp_total > 50      6grp_cgc > 93      6grp_cgc_sub > 03      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 110
1 2 3 4 range
A 65.7
(-3)
A 		77.4
(-1.3)
M 		106.4
(3)
A 		69.8
(-2.4)
A 		41
B 17.5
(-3)
A 		106.5
(3)
A 		68.6
(0.4)
A 		62.7
(0)
A 		89
C 63
(-0.6)
M 		127.8
(3)
M 		85.7
(0.6)
P 		20.6
(-3)
A 		107
avr 48.7
(-3) 		103.9
(3) 		86.9
(1.2) 		51
(-2.8) 		55

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 86
1 2 3 4 5 6 range
A 61.1
(-1.9)
A 		92.6
(3)
A 		88
(2.3)
P 		83.7
(1.6)
P 		54.4
(-3)
A 		88.8
(2.4)
A 		38
B 89.3
(-1.1)
P 		75.2
(-2.3)
M 		106
(0.3)
P 		139.1
(3)
P 		91.8
(-0.9)
A 		66.6
(-3)
A 		73
C 57.3
(-2.4)
A 		75.7
(0.4)
P 		84
(1.6)
P 		53.8
(-3)
A 		53.5
(-3)
P 		93.2
(3)
P 		40
avr 69.2
(-2.4) 		81.2
(0.4) 		92.7
(3) 		92.2
(2.9) 		66.6
(-3) 		82.9
(0.7) 		26
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 33
1 2 3 4 range
A 23.9
(1.7)
A 		16.8
(-0.8)
M 		27.8
(3)
A 		10.2
(-3)
A 		18
B 5.6
(-3)
A 		26.3
(3)
A 		15.9
(-0)
A 		13.4
(-0.7)
A 		21
C 20.8
(0.1)
M 		36.7
(3)
M 		29.9
(1.8)
P 		3.5
(-3)
A 		33
avr 16.8
(-0.3) 		26.6
(3) 		24.5
(2.3) 		9
(-3) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 27
1 2 3 4 5 6 range
A 11.3
(-3)
A 		32.9
(3)
A 		19.2
(-0.8)
P 		21.2
(-0.3)
P 		16.4
(-1.6)
A 		21.6
(-0.1)
A 		22
B 31.1
(0)
P 		25
(-2.9)
M 		25.7
(-2.6)
P 		36.9
(2.8)
P 		37.3
(3)
A 		24.8
(-3)
A 		13
C 21.2
(0.1)
A 		23.1
(0.6)
P 		21.4
(0.1)
P 		10.8
(-3)
A 		17.3
(-1.1)
P 		31.2
(3)
P 		20
avr 21.2
(-3) 		27
(3) 		22.1
(-2.1) 		23
(-1.1) 		23.7
(-0.4) 		25.9
(1.9) 		6
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192488_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14285
Sequence Type Exemplar sequence
Representative Public ID T13F3.3 NCBI
Target Description T13F3.3 /REP_DB=WormBase Gene ID /WP=CE16409 /TR=O18087 /GB=CAB07671.1 /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_074703(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074703 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-127) (nhr-127) mRNA, complete cds. 10/11 None
SNAP00000028752 ENSEMBL cdna:SNAP chromosome:CEL140:V:16265735:16266474:1 10/11 None
GENEFINDER00000028762 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:16264878:16266474:1 10/11 None
T13F3.3 ENSEMBL cdna:known chromosome:CEL140:V:16264878:16266474:1 gene:T13F3.3 10/11 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:16264877-16266474(+) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol nhr-127
Ensembl T13F3.3
Entrez Gene 188480 Entrez gene
SwissProt O18087 EMBL-EBI
WormBase CE35617 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 CAB07671 Hypothetical protein T13F3.3 [Caenorhabditis elegans] ref|NP_507104.2| Nuclear Hormone Receptor family member (nhr-127) [Caenorhabditis elegans] 0.0
blast CAB07671 Hypothetical protein T13F3.3 [Caenorhabditis elegans] ref|NP_507104.2| Nuclear Hormone Receptor family member (nhr-127) [Caenorhabditis elegans] 8.0E-96
blast CAE69640 Hypothetical protein CBG15881 [Caenorhabditis briggsae] 4.0E-72
blast CAB07670 Hypothetical protein T13F3.2 [Caenorhabditis elegans] ref|NP_507103.1| T13F3.2 [Caenorhabditis elegans] 7.0E-69
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.3E-23
Sequence
Target Sequence 
>C. ELEGANS:192488_AT
gtgctacatggctacttttttcttcgtttttccagaagcttgaggaaaatgaaaaagtag
taattttggaaaggttgtggcatggatggacagttctcgaatttttgagtagatcacttg
aaattttcggaaacaaagttattgatgaaaaggtaaaattgattttaattcaacaattaa
aaatttttttttctaatattaggatagttttcatctcggacaacactgcaattcgcctta
tcactgcatttgaaaactctttaaagacagcaagcccgaagaaaagtgaatcgattaaga
agaagctggaattgtcattttcagtaatatttgatgaattagcactacatttcataaatt
ggaagccgactgaaattgaaatttcgtatatgcagtggcaaatagtttggagtgtagcag
aacaattactttctggaaattctctggaaaagggggaacatttcaccgagcaactatcca
aggatcttcatgaatattacgtgcgag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGCTACATGGCTACTTTTTTCTTC 153 481 545 Antisense
GTGGCATGGATGGACAGTTCTCGAA 644 491 621 Antisense
GGATAGTTTTCATCTCGGACAACAC 236 511 746 Antisense
TCGGACAACACTGCAATTCGCCTTA 685 601 760 Antisense
CAATTCGCCTTATCACTGCATTTGA 666 179 773 Antisense
AACTCTTTAAAGACAGCAAGCCCGA 461 141 799 Antisense
AGCTGGAATTGTCATTTTCAGTAAT 678 79 848 Antisense
TGAAATTTCGTATATGCAGTGGCAA 254 571 921 Antisense
AGGGGGAACATTTCACCGAGCAACT 502 55 995 Antisense
TCACCGAGCAACTATCCAAGGATCT 134 627 1007 Antisense
GATCTTCATGAATATTACGTGCGAG 542 417 1027 Antisense
Sequence Source Affymetrix Proprietary Database