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[192173_s_at] zinc finger protein

Description T19A5.4 /REP_DB=WormBase Gene ID /WP=CE13732 /GEN=nhr-44 /TR=Q22555 /GB=AAC69040.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_high1_10_10 > 34      4grp_high_8_8 > 10      6grp_total > 40      4grp_total > 22      6grp_cgc > 72      6grp_high1_sub > 02      6grp_cgc_sub > 02      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 330
1 2 3 4 range
A 389.5
(2.9)
P 		180.4
(-2.9)
A 		176.4
(-3)
A 		393.1
(3)
P 		217
B 438.6
(3)
P 		212.6
(-2.7)
P 		202.1
(-3)
P 		430.1
(2.8)
P 		237
C 435.9
(1.7)
P 		241.8
(-2)
M 		190.1
(-3)
P 		506.2
(3)
P 		316
avr 421.3
(2.5) 		211.6
(-2.5) 		189.5
(-3) 		443.1
(3) 		254

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 228
1 2 3 4 5 6 range
A 279.9
(0.7)
P 		269.8
(0.2)
P 		331.5
(3)
P 		233.3
(-1.5)
P 		203.6
(-2.8)
P 		199.6
(-3)
P 		132
B 301.6
(2.6)
P 		279.8
(1.6)
P 		276.4
(1.4)
P 		309.5
(3)
P 		182.3
(-3)
P 		252.3
(0.3)
P 		127
C 256
(-0.2)
P 		379.1
(3)
P 		216.4
(-1.3)
P 		271.5
(0.2)
P 		151.3
(-3)
A 		239.7
(-0.7)
P 		228
avr 279.2
(1.6) 		309.6
(3) 		274.8
(1.4) 		271.4
(1.2) 		179.1
(-3) 		230.5
(-0.6) 		131
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 105
1 2 3 4 range
A 141.8
(3)
P 		39.2
(-3)
A 		46.1
(-2.6)
A 		57.5
(-1.9)
P 		103
B 139.9
(3)
P 		52.5
(-2.6)
P 		46.8
(-3)
P 		91.6
(-0.1)
P 		93
C 144.3
(3)
P 		69.5
(-2.7)
M 		66.2
(-3)
P 		85.3
(-1.5)
P 		78
avr 142
(3) 		53.7
(-3) 		53
(-3) 		78.1
(-1.3) 		89

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 67
1 2 3 4 5 6 range
A 51.6
(-2.6)
P 		95.9
(3)
P 		72.2
(-0)
P 		59.2
(-1.7)
P 		61.4
(-1.4)
P 		48.6
(-3)
P 		47
B 104.9
(3)
P 		93.1
(1.1)
P 		67.1
(-3)
P 		82
(-0.6)
P 		74.1
(-1.9)
P 		94.1
(1.3)
P 		38
C 94.9
(1.1)
P 		115.7
(3)
P 		55.1
(-2.5)
P 		54.6
(-2.5)
P 		49
(-3)
A 		80.3
(-0.2)
P 		67
avr 83.8
(0.3) 		101.6
(3) 		64.8
(-2.5) 		65.3
(-2.4) 		61.5
(-3) 		74.3
(-1.1) 		40
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192173_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12417
Sequence Type Exemplar sequence
Representative Public ID T19A5.4 NCBI
Target Description T19A5.4 /REP_DB=WormBase Gene ID /WP=CE13732 /GEN=nhr-44 /TR=Q22555 /GB=AAC69040.1 /SUBMIT=ST.LOUIS /CHR=5 /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_072912(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072912 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-44) (nhr-44) mRNA, complete cds. 11/11 None
SNAP00000024602 ENSEMBL cdna:SNAP chromosome:CEL140:V:8961347:8966686:-1 9/11 None
GENEFINDER00000024607 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8964547:8970993:-1 11/11 None
T19A5.4 ENSEMBL cdna:known chromosome:CEL140:V:8964484:8966686:-1 gene:T19A5.4 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:8964547-8966687(-) 100.0 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhr-44
Ensembl T19A5.4
Entrez Gene 179276 Entrez gene
SwissProt Q22555 EMBL-EBI
WormBase CE13732 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 AAC69040 Nuclear hormone receptor family protein 44 [Caenorhabditis elegans] ref|NP_505313.1| Nuclear Hormone Receptor family member (nhr-44) [Caenorhabditis elegans] sp|Q22555|NHR44_CAEEL Nuclear hormone receptor family member nhr-44 0.0
blast AAR11978 nuclear receptor NHR-44 [Caenorhabditis elegans] 0.0
blast AAG15134 nuclear receptor NHR-44 [Caenorhabditis elegans] 0.0
blast AAC69041 Hypothetical protein T19A5.5 [Caenorhabditis elegans] ref|NP_505314.1| T19A5.5 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 9.8E-5
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 6.2E-13
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 0.0032
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 9.8E-5
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.1E-6
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 5.6E-13
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 6.2E-13
Sequence
Target Sequence 
>C. ELEGANS:192173_S_AT
atgtggcatctgtttattcgtctagagagaatttcaatgacagccgagatgcggagaatg
aagctttgtgatgataaagaatttatatacggaacagagcaaagaattaactacgatact
ctggaaattgatcgtgattggttttctgaagcaactgatagagaagtacgaagcttcatc
ggtccccttccgcgatggttttgtgagacaataattgatgcattaatggaattacgccca
agtgatgtagaactgtcatttatgctctgtaatttatgtttccatttgactggccaaaaa
ttgggaggaagaattcaagaaataactgatcgtcttcaagatgttctggccaacgatctt
cataaatactatctcgcaaaggataaatattctagatactcatacagattgaccaaattg
ttaagcttgaatcggcaatataagaatgatttggaaatcaggcgacagggaatcttcttg
gccaatacactta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGTGGCATCTGTTTATTCGTCTAG 509 49 754 Antisense
GAATTTCAATGACAGCCGAGATGCG 588 325 782 Antisense
TGATCGTGATTGGTTTTCTGAAGCA 389 565 882 Antisense
GAAGTACGAAGCTTCATCGGTCCCC 333 325 916 Antisense
CCCCTTCCGCGATGGTTTTGTGAGA 554 261 937 Antisense
GTAGAACTGTCATTTATGCTCTGTA 409 457 1000 Antisense
TTTATGTTTCCATTTGACTGGCCAA 457 673 1026 Antisense
GATCGTCTTCAAGATGTTCTGGCCA 403 417 1081 Antisense
GTTCTGGCCAACGATCTTCATAAAT 165 443 1096 Antisense
ATCAGGCGACAGGGAATCTTCTTGG 404 27 1210 Antisense
GGAATCTTCTTGGCCAATACACTTA 624 531 1222 Antisense
Sequence Source Affymetrix Proprietary Database