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[193749_at]

Description F33D4.1 /REP_DB=WormBase Gene ID /WP=CE20746 /GEN=nhr-8 /TR=SW:Q9XYB7 /GB=AAK68361.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=zinc finger protein-hormone receptor
Cluster 6grp_highest_10_10 > 07      6grp_high1_10_10 > 43      4grp_highest_8_8 > 19      4grp_high_8_8 > 63      6grp_highest_nonorm > 71      6grp_total > 30      4grp_total > 56      6grp_highest_sub > 04      6grp_cgc > 73      6grp_high1_sub > 02      6grp_cgc_sub > 02_03      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 389
1 2 3 4 range
A 316.8
(-1.5)
P 		396.8
(-0.2)
P 		593.3
(3)
P 		222.9
(-3)
P 		370
B 336
(-3)
P 		465.4
(0.9)
P 		535.9
(3)
P 		374.4
(-1.8)
P 		200
C 372.9
(-1.2)
P 		330.6
(-1.9)
P 		611.8
(3)
P 		270.5
(-3)
P 		341
avr 341.9
(-1.9) 		397.6
(-0.8) 		580.3
(3) 		289.3
(-3) 		291

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 263
1 2 3 4 5 6 range
A 192.5
(-3)
P 		369.5
(2.4)
P 		387.9
(3)
P 		327.5
(1.1)
P 		296.2
(0.2)
P 		295.6
(0.2)
P 		195
B 290.5
(-1.9)
P 		356.7
(2)
P 		303.5
(-1.2)
P 		372.8
(3)
P 		273
(-3)
P 		302.8
(-1.2)
P 		100
C 269.2
(-3)
P 		389.4
(0.9)
P 		339.1
(-0.7)
P 		455.1
(3)
P 		290.2
(-2.3)
P 		277
(-2.7)
P 		186
avr 250.7
(-3) 		371.9
(2.4) 		343.5
(1.1) 		385.1
(3) 		286.5
(-1.4) 		291.8
(-1.2) 		134
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 181
1 2 3 4 range
A 115.4
(1.1)
P 		86.1
(-0.4)
P 		155.1
(3)
P 		32.6
(-3)
P 		123
B 107.2
(0.7)
P 		115
(1.8)
P 		124.2
(3)
P 		79.8
(-3)
P 		44
C 123.4
(-0.2)
P 		95
(-1.2)
P 		213.2
(3)
P 		45.6
(-3)
P 		168
avr 115.3
(0.4) 		98.7
(-0.5) 		164.2
(3) 		52.7
(-3) 		112

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 96
1 2 3 4 5 6 range
A 35.5
(-3)
P 		131.4
(3)
P 		84.5
(0.1)
P 		83
(-0)
P 		89.4
(0.4)
P 		72
(-0.7)
P 		96
B 101.1
(0.7)
P 		118.7
(3)
P 		73.7
(-3)
P 		98.7
(0.3)
P 		110.9
(2)
P 		112.9
(2.2)
P 		45
C 99.8
(-0.5)
P 		118.8
(3)
P 		86.3
(-3)
P 		91.5
(-2)
P 		93.9
(-1.6)
P 		92.7
(-1.8)
P 		33
avr 78.8
(-3) 		123
(3) 		81.5
(-2.6) 		91.1
(-1.3) 		98.1
(-0.4) 		92.5
(-1.1) 		44
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193749_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9683
Sequence Type Exemplar sequence
Representative Public ID F33D4.1 NCBI
Target Description F33D4.1 /REP_DB=WormBase Gene ID /WP=CE20746 /GEN=nhr-8 /TR=SW:Q9XYB7 /GB=AAK68361.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=zinc finger protein-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_171382(11), NM_001027998(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171382 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-8) (nhr-8) mRNA, complete cds. 11/11 None
NM_001027998 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-8) (nhr-8) mRNA, complete cds. 11/11 None
SNAP00000032728 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7713089:7714153:1 11/11 None
GENEFINDER00000032738 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7711154:7714153:1 11/11 None
F33D4.1a ENSEMBL cdna:known chromosome:CEL140:IV:7710971:7714182:1 gene:F33D4.1 11/11 None
F33D4.1b ENSEMBL cdna:known chromosome:CEL140:IV:7710972:7714167:1 gene:F33D4.1 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
chrIV:7711159-7714159(+) 100.0 100.0
Public Domain and Genome References
Ensembl F33D4.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAP31436 Nuclear hormone receptor family protein 8, isoform a [Caenorhabditis elegans] ref|NP_741445.1| Nuclear Hormone Receptor family member (nhr-8) [Caenorhabditis elegans] gb|AAD03684.1| nuclear receptor NHR-8 [Caenorhabditis elegans] sp|Q9XYB7|NHR8_CAEEL Nuclear hormone receptor family member nhr-8 0.0
blast AAP31437 Nuclear hormone receptor family protein 8, isoform b [Caenorhabditis elegans] ref|NP_001023169.1| Nuclear Hormone Receptor family member (nhr-8) [Caenorhabditis elegans] 0.0
blast T32556 hypothetical protein F33D4.1 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.7E-22
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.6E-29
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.7E-22
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.7E-22
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.7E-22
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.6E-29
Sequence
Target Sequence 
>C. ELEGANS:193749_AT
ggcatgccaattaagtctattccgagagcttcacgtggacgataggaaaaatctcttgaa
aagtggatttggggagttgttgattgtgcggggtcttatggcctatgacaagagtgataa
cagctggaatcattcatttggagtacgaggaaaaatggaggtaaaggtggaagttcttaa
gaatccaaaacttgaagaacattacaaagcacacatgaacttgctttcaacgtttggaga
agatgtgaggaataatgaacatttgatgctcattttcaatgcagctgttatatttcatcc
tcatgtctccaacttacgtgatagtaaacgagtgcactcaacacaagcaaaatatttcca
gatgctcttgaaacttcttacatttgaatatggtaaatcacgtgctgacattgcatacag
taatcttctgaatcaagtcgtcgagcttcatcgtgtgaataggaccttacttcgtgtgtt
ttat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGCATGCCAATTAAGTCTATTCCGA 167 537 1134 Antisense
GTCTATTCCGAGAGCTTCACGTGGA 685 467 1148 Antisense
TGGGGAGTTGTTGATTGTGCGGGGT 531 553 1203 Antisense
TTGTGCGGGGTCTTATGGCCTATGA 472 703 1217 Antisense
GCACACATGAACTTGCTTTCAACGT 125 317 1342 Antisense
GCAGCTGTTATATTTCATCCTCATG 663 313 1414 Antisense
TCCTCATGTCTCCAACTTACGTGAT 638 591 1431 Antisense
AGATGCTCTTGAAACTTCTTACATT 126 67 1493 Antisense
ATCACGTGCTGACATTGCATACAGT 223 29 1530 Antisense
AAGTCGTCGAGCTTCATCGTGTGAA 86 159 1568 Antisense
TAGGACCTTACTTCGTGTGTTTTAT 251 653 1593 Antisense
Sequence Source Affymetrix Proprietary Database