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[189031_at] nuclear hormone receptor

Description F44E7.8 /REP_DB=WormBase Gene ID /WP=CE20792 /GB=AAK70652.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_highest_10_10 > 31      6grp_high1_10_10 > 03      4grp_highest_8_8 > 23      4grp_high_8_8 > 06      6grp_highest_nonorm > 71      6grp_total > 24      4grp_total > 02      6grp_highest_sub > De      6grp_cgc > 31      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 401
1 2 3 4 range
A 245.9
(-2.8)
P 		276.1
(-2.4)
P 		234
(-3)
P 		625.8
(3)
P 		392
B 297.9
(-2.8)
P 		292.4
(-3)
P 		301.5
(-2.7)
P 		506.1
(3)
P 		214
C 283.1
(-1.6)
P 		225
(-3)
P 		271.4
(-1.9)
P 		480.9
(3)
P 		256
avr 275.6
(-2.8) 		264.5
(-3) 		269
(-2.9) 		537.6
(3) 		273

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 376
1 2 3 4 5 6 range
A 562.6
(3)
P 		372.1
(-0.5)
P 		327.7
(-1.4)
P 		324.3
(-1.4)
P 		295.5
(-2)
P 		240.2
(-3)
P 		322
B 448.1
(3)
P 		404.7
(1.7)
P 		442.1
(2.8)
P 		271.1
(-2.4)
P 		286.8
(-1.9)
P 		250
(-3)
P 		198
C 300.2
(0.4)
P 		385.5
(3)
P 		291.8
(0.2)
P 		327.8
(1.3)
P 		186.4
(-3)
P 		291
(0.2)
P 		199
avr 437
(3) 		387.4
(1.4) 		353.9
(0.2) 		307.7
(-1.3) 		256.2
(-3) 		260.4
(-2.9) 		181
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 48
1 2 3 4 range
A 89.5
(2.6)
P 		59.9
(-3)
P 		61.2
(-2.8)
P 		91.6
(3)
P 		32
B 95
(1)
P 		72.2
(-2.6)
P 		69.9
(-3)
P 		107.9
(3)
P 		38
C 93.7
(2.8)
P 		64.7
(-3)
P 		94.6
(3)
P 		81.1
(0.3)
P 		30
avr 92.7
(2.8) 		65.6
(-3) 		75.2
(-0.9) 		93.5
(3) 		28

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 97
1 2 3 4 5 6 range
A 103.7
(0.7)
P 		132.3
(3)
P 		71.4
(-2)
P 		82.2
(-1.1)
P 		89.2
(-0.5)
P 		58.5
(-3)
P 		74
B 155.9
(3)
P 		134.7
(1.5)
P 		107.3
(-0.5)
P 		71.8
(-3)
P 		116.5
(0.2)
P 		93.2
(-1.5)
P 		84
C 111.3
(2.3)
P 		117.6
(3)
P 		74.3
(-1.5)
P 		65.9
(-2.4)
P 		60.3
(-3)
P 		97.4
(0.9)
P 		57
avr 123.6
(2.5) 		128.2
(3) 		84.3
(-1.8) 		73.3
(-3) 		88.7
(-1.3) 		83
(-1.9) 		55
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189031_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12150
Sequence Type Exemplar sequence
Representative Public ID F44E7.8 NCBI
Target Description F44E7.8 /REP_DB=WormBase Gene ID /WP=CE20792 /GB=AAK70652.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
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_072117(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072117 NCBI Caenorhabditis elegans F44E7.8 (F44E7.8) mRNA, complete cds. 11/11 None
SNAP00000006992 ENSEMBL cdna:SNAP chromosome:CEL140:V:5788660:5791344:-1 11/11 None
GENEFINDER00000006995 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:5788660:5792034:-1 11/11 None
F44E7.8 ENSEMBL cdna:known chromosome:CEL140:V:5788660:5792022:-1 gene:F44E7.8 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:5788659-5792022(-) 100.0 100.0
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol nhr-142
Ensembl F44E7.8
Entrez Gene 185740 Entrez gene
SwissProt Q8MXK0 EMBL-EBI
WormBase CE35972 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 AAM45373 Hypothetical protein F44E7.8 [Caenorhabditis elegans] ref|NP_504518.3| F44E7.8 [Caenorhabditis elegans] 0.0
blast CAE64569 Hypothetical protein CBG09320 [Caenorhabditis briggsae] 1.0E-136
blast CAB03298 Hypothetical protein T06C12.6 [Caenorhabditis elegans] ref|NP_506967.1| Nuclear Hormone Receptor family member (nhr-102) [Caenorhabditis elegans] 3.0E-86
blast CAB03298 Hypothetical protein T06C12.6 [Caenorhabditis elegans] ref|NP_506967.1| Nuclear Hormone Receptor family member (nhr-102) [Caenorhabditis elegans] 6.0E-84
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 9.8E-4
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.0E-25
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 9.8E-4
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.0E-25
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 9.8E-4
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.0E-25
Sequence
Target Sequence 
>C. ELEGANS:189031_AT
aaataccagttgatgatccggtttaccagtcgaccagcactttaggaaaaatggattggg
ctttgagacgtcatcggaagaataaaaagatgcaaaacttccgaattctcatcacctcaa
attcgactgcaattcgaatggaagatgttgaaattgatctttccaagataaccgactaca
cttccctcgagctccgaaaaatgttccaacatgtgtgctcacaaatgtatgaagaagtcg
ctcgtccacttatggagcttgatccatccacaattgaaattagttacatgttgtgtcaaa
tcatatggcatattgctggaaaaactcttcaaggtgatattcttgatgcgggagagaaat
tcattgggaaaatagccgacgatcttcatcaatattatttgaaagagtacaaaatgtcaa
actatgctggtagacttatcaaactgatgactgttgtgaatagtttacagagaattcatt
tggatcgcctga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAATACCAGTTGATGATCCGGTTTA 390 117 488 Antisense
TTACCAGTCGACCAGCACTTTAGGA 535 681 510 Antisense
TTGGGCTTTGAGACGTCATCGGAAG 683 705 543 Antisense
TCCAAGATAACCGACTACACTTCCC 247 587 649 Antisense
ACTTCCCTCGAGCTCCGAAAAATGT 446 97 667 Antisense
AATGTTCCAACATGTGTGCTCACAA 621 163 687 Antisense
GTCGCTCGTCCACTTATGGAGCTTG 335 475 724 Antisense
GAGCTTGATCCATCCACAATTGAAA 54 389 742 Antisense
AATAGCCGACGATCTTCATCAATAT 415 173 858 Antisense
CTATGCTGGTAGACTTATCAAACTG 462 223 909 Antisense
CAGAGAATTCATTTGGATCGCCTGA 23 207 955 Antisense
Sequence Source Affymetrix Proprietary Database