[Home] | [Total List]

[192601_s_at] Zinc finger, C4 type (two domains)

Description F35E8.12 /REP_DB=WormBase Gene ID /WP=CE15962 /TR=O45449 /GB=CAB04290.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_high1_10_10 > 63      4grp_highest_8_8 > 31      4grp_high_8_8 > 05      6grp_total > 63      4grp_total > 03      6grp_cgc > 92      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 225
1 2 3 4 range
A 102.8
(-1.8)
P 		107.1
(-1.7)
P 		57.6
(-3)
P 		277.7
(3)
P 		220
B 85.7
(-3)
P 		98.7
(-2.3)
P 		88.5
(-2.8)
P 		194
(3)
P 		108
C 121.1
(-1.3)
P 		59.5
(-3)
P 		96.4
(-2)
P 		283
(3)
P 		224
avr 103.2
(-2.2) 		88.4
(-2.7) 		80.8
(-3) 		251.6
(3) 		171

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 156
1 2 3 4 5 6 range
A 58.7
(-3)
A 		69.1
(-2.4)
P 		166.2
(3)
P 		132.4
(1.1)
P 		95.6
(-0.9)
P 		60.3
(-2.9)
P 		108
B 47.6
(-3)
A 		87.3
(-1.5)
P 		203.2
(3)
P 		93
(-1.2)
P 		87.4
(-1.5)
P 		99.7
(-1)
P 		156
C 78.3
(-2.6)
P 		83.2
(-2)
P 		75.4
(-3)
P 		123
(3)
P 		79.4
(-2.5)
P 		119.1
(2.5)
P 		48
avr 61.5
(-3) 		79.9
(-1.7) 		148.3
(3) 		116.1
(0.8) 		87.5
(-1.2) 		93
(-0.8) 		87
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 33
1 2 3 4 range
A 37.4
(2.2)
P 		23.2
(-1.1)
P 		15.1
(-3)
P 		40.7
(3)
P 		26
B 27.3
(-1)
P 		24.4
(-1.9)
P 		20.5
(-3)
P 		41.3
(3)
P 		21
C 40.1
(1.5)
P 		17.1
(-3)
P 		33.6
(0.2)
P 		47.7
(3)
P 		31
avr 34.9
(0.7) 		21.6
(-3) 		23.1
(-2.6) 		43.2
(3) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 39
1 2 3 4 5 6 range
A 10.8
(-3)
A 		24.6
(0.3)
P 		36.2
(3)
P 		33.6
(2.4)
P 		28.9
(1.3)
P 		14.7
(-2.1)
P 		25
B 16.6
(-3)
A 		29
(-0.7)
P 		49.3
(3)
P 		24.6
(-1.5)
P 		35.5
(0.5)
P 		37.2
(0.8)
P 		33
C 29
(-0.2)
P 		25.4
(-1.2)
P 		19.2
(-3)
P 		24.7
(-1.4)
P 		25.7
(-1.1)
P 		39.9
(3)
P 		21
avr 18.8
(-3) 		26.3
(-0.2) 		34.9
(3) 		27.6
(0.3) 		30
(1.2) 		30.6
(1.4) 		16
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192601_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14198
Sequence Type Exemplar sequence
Representative Public ID F35E8.12 NCBI
Target Description F35E8.12 /REP_DB=WormBase Gene ID /WP=CE15962 /TR=O45449 /GB=CAB04290.1 /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_074586(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074586 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-108) (nhr-108) mRNA, complete cds. 11/11 None
GENEFINDER00000019530 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:15925742:15926988:-1 11/11 None
F35E8.12 ENSEMBL cdna:known chromosome:CEL140:V:15925627:15927055:-1 gene:F35E8.12 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000019518 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:15925741-15926988(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol nhr-108
Ensembl F35E8.12
Entrez Gene 180065 Entrez gene
SwissProt O45449 EMBL-EBI
WormBase CE15962 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 CAB04290 Hypothetical protein F35E8.12 [Caenorhabditis elegans] ref|NP_506987.1| Nuclear Hormone Receptor family member (nhr-108) [Caenorhabditis elegans] gb|AAO39197.1| nuclear receptor NHR-108 [Caenorhabditis elegans] 0.0
blast CAB05485 Hypothetical protein F14H3.11 [Caenorhabditis elegans] ref|NP_507045.2| F14H3.11 [Caenorhabditis elegans] 7.0E-89
blast AAC25857 Nuclear hormone receptor family protein 42 [Caenorhabditis elegans] ref|NP_504771.1| Nuclear Hormone Receptor family member (nhr-42) [Caenorhabditis elegans] sp|O76828|NHR42_CAEEL Nuclear hormone receptor family member nhr-42 3.0E-65
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 8.8E-8
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.4E-12
Sequence
Target Sequence 
>C. ELEGANS:192601_S_AT
aactaatttccacgcatttcattcaattttttgaatctaaatcttcattggaaaacaatc
aaaataaggttttatctacccacttcattattcgattttcacttcttgaagtagctttta
gagcatttgggaaacctacatacattttaccaaataatgatatcattgacgtatccaaat
tagacaaagtatatcaacatttggaaacaggtgaagatgagagagggaagaactctcaag
taattctacaaagattctggcaaatgaatgagaaaaccatgaaaactgaagtgtttcctg
taaacttggatcaatctgaatttctatttctatgtgcactcatctactgggattttggaa
ttgaaaatcaatctgaaaagtgtttggaagagtgtcaacggatgcgtactcaagttttaa
aagaactcactgagtatgaaaaatcaaactatccagaaaatgaactccgagttgctcaag
tgattggcatcttgcaagctctgcaaaaaacattggacgtgattcaacacagcggat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACTAATTTCCACGCATTTCATTCA 300 137 428 Antisense
ATAAGGTTTTATCTACCCACTTCAT 214 23 491 Antisense
ACCCACTTCATTATTCGATTTTCAC 525 89 505 Antisense
GAGCATTTGGGAAACCTACATACAT 672 387 548 Antisense
GAAGTGTTTCCTGTAAACTTGGATC 9 337 715 Antisense
AATTTCTATTTCTATGTGCACTCAT 308 175 746 Antisense
GTGCACTCATCTACTGGGATTTTGG 359 481 761 Antisense
GTGTCAACGGATGCGTACTCAAGTT 360 485 819 Antisense
GAACTCCGAGTTGCTCAAGTGATTG 201 349 889 Antisense
GTGATTGGCATCTTGCAAGCTCTGC 594 483 907 Antisense
TTGGACGTGATTCAACACAGCGGAT 101 709 940 Antisense
Sequence Source Affymetrix Proprietary Database