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[190138_at] zinc finger protein

Description W04H10.3 /REP_DB=WormBase Gene ID /WP=CE14604 /TR=O44850 /GB=AAB95013.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_high1_10_10 > 05      6grp_total > 04      4grp_total > 13      6grp_cgc > 41      6grp_high1_sub > De      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 284
1 2 3 4 range
A 320.1
(1.3)
P 		254.3
(-1.6)
P 		223.9
(-3)
A 		356.8
(3)
P 		133
B 375.5
(1.9)
P 		234.6
(-2)
P 		199.8
(-3)
A 		416.6
(3)
P 		217
C 284.2
(-0.7)
P 		200.2
(-2.5)
A 		175.8
(-3)
M 		459.6
(3)
P 		284
avr 326.6
(0.6) 		229.7
(-2.2) 		199.8
(-3) 		411
(3) 		211

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 197
1 2 3 4 5 6 range
A 321.4
(2.3)
P 		299.2
(1.5)
P 		201.1
(-1.7)
M 		242.4
(-0.3)
P 		344.4
(3)
P 		159.7
(-3)
P 		185
B 343.1
(3)
P 		221.5
(-1.8)
P 		219.9
(-1.9)
P 		281.3
(0.6)
P 		235.4
(-1.3)
P 		191.1
(-3)
P 		152
C 277.3
(2.1)
P 		299.7
(3)
P 		245.1
(0.9)
P 		179.2
(-1.7)
P 		177.8
(-1.8)
P 		147
(-3)
P 		153
avr 313.9
(3) 		273.5
(1.4) 		222
(-0.7) 		234.3
(-0.2) 		252.5
(0.5) 		165.9
(-3) 		148
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 73
1 2 3 4 range
A 116.5
(3)
P 		55.2
(-2.7)
P 		58.5
(-2.4)
A 		52.2
(-3)
P 		64
B 119.7
(3)
P 		57.9
(-2.1)
P 		46.3
(-3)
A 		88.8
(0.5)
P 		73
C 94.1
(3)
P 		57.6
(-3)
A 		61.3
(-2.4)
M 		77.5
(0.3)
P 		37
avr 110.1
(3) 		56.9
(-2.8) 		55.4
(-3) 		72.8
(-1.1) 		55

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 83
1 2 3 4 5 6 range
A 59.2
(-1.2)
P 		106.4
(3)
P 		43.8
(-2.6)
M 		61.5
(-1)
P 		103.9
(2.8)
P 		38.9
(-3)
P 		68
B 119.4
(3)
P 		73.7
(-1.2)
P 		53.4
(-3)
P 		74.5
(-1.1)
P 		95.6
(0.8)
P 		71.3
(-1.4)
P 		66
C 102.8
(3)
P 		91.4
(2)
P 		62.4
(-0.6)
P 		36
(-3)
P 		57.5
(-1.1)
P 		49.2
(-1.8)
P 		67
avr 93.8
(3) 		90.5
(2.5) 		53.2
(-3) 		57.3
(-2.4) 		85.7
(1.8) 		53.1
(-3) 		41
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190138_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5234
Sequence Type Exemplar sequence
Representative Public ID W04H10.3 NCBI
Target Description W04H10.3 /REP_DB=WormBase Gene ID /WP=CE14604 /TR=O44850 /GB=AAB95013.1 /SUBMIT=ST.LOUIS /CHR=2 /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_061367(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061367 NCBI Caenorhabditis elegans NHL (ring finger b-box coiled coil) domain containing family member (nhl-3) (nhl-3) mRNA, complete cds. 11/11 A 
SNAP00000015252 ENSEMBL cdna:SNAP chromosome:CEL140:II:595328:603170:-1 11/11 None
GENEFINDER00000015255 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:595328:602123:-1 10/11 None
W04H10.3 ENSEMBL cdna:known chromosome:CEL140:II:595209:602126:-1 gene:W04H10.3 11/11 A 
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
chrII:595779-603678(-) 98.81 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhl-3
Ensembl W04H10.3
Entrez Gene 173452 Entrez gene
SwissProt O44850 EMBL-EBI
WormBase CE33468 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB95013 Nhl (ring finger b-box coiled coil) domain containing protein 3 [Caenorhabditis elegans] ref|NP_493768.3| NHL (ring finger b-box coiled coil) domain containing family member (nhl-3) [Caenorhabditis elegans] 0.0
blast CAE62898 Hypothetical protein CBG07087 [Caenorhabditis briggsae] 0.0
blast CAE62898 Hypothetical protein CBG07087 [Caenorhabditis briggsae] 1.0E-165
blast XP_392730 PREDICTED: similar to NHL domain containing (nhl-3) [Apis mellifera] 2.0E-84
blast XP_392730 PREDICTED: similar to NHL domain containing (nhl-3) [Apis mellifera] 2.0E-83
Protein Domains
Database ID Description E-Value
scop a.2.5.Prefoldin All alpha proteins; Long alpha-hairpin; Prefoldin; Prefoldin 0.159999996423721
scop a.4.5.SCF ubiquitin ligase complex WHB domain All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; SCF ubiquitin ligase complex WHB domain 1.89999997615814
scop a.4.5.SCF ubiquitin ligase complex WHB domain All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; SCF ubiquitin ligase complex WHB domain 2.09999990463257
scop a.4.5.SCF ubiquitin ligase complex WHB domain All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; SCF ubiquitin ligase complex WHB domain 2.59999990463257
Pfam IPR000315 EMBL-EBI Zn-finger, B-box 5.0E-6
Pfam IPR000315 EMBL-EBI Zn-finger, B-box 5.0E-6
Pfam IPR001841 EMBL-EBI Zn-finger, RING 9.4E-8
Sequence
Target Sequence 
>C. ELEGANS:190138_AT
ggcgaccggtggcaaatagtcctctggcattccgaattgacagcttccatgcctatgact
ggcaaatgcctgtcacattcaaatatcccacaaaatgttggtgggatgagccgacgaaac
ggatgttcgtgctggatagtgggaacaagagagttcgggtgcttcgagacaatggtgacg
tcatcacggatagcggcactgtcggaatggtatacctgggtaacgaggagctcgtcgtcc
tgtcttggcagcgcaaaatgctcagcaaactaaatacacgtggcgaaatcctgaaagccg
tccaattttccgagttctaccagccgacggatgttgcagtggactcgcgtggccgatttg
tgatagctgataaaacgaaaatcttcatttttgattcgaatttcaagccgctgctcagtt
ttccggtgcgagagacgaagggcgccgaggtgaagtgcgtgggtgttgggctcgatgatg
acgtcattgttgggaccaccgatgagcttttgttgta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGCGACCGGTGGCAAATAGTCCTCT 374 539 1520 Antisense
ATAGTCCTCTGGCATTCCGAATTGA 669 21 1535 Antisense
GACAGCTTCCATGCCTATGACTGGC 148 369 1558 Antisense
TGCCTGTCACATTCAAATATCCCAC 400 585 1586 Antisense
CATCACGGATAGCGGCACTGTCGGA 107 211 1701 Antisense
GTAACGAGGAGCTCGTCGTCCTGTC 281 457 1739 Antisense
AGCCGACGGATGTTGCAGTGGACTC 9 83 1841 Antisense
TGATTCGAATTTCAAGCCGCTGCTC 655 563 1911 Antisense
CTGCTCAGTTTTCCGGTGCGAGAGA 509 237 1930 Antisense
GGGTGTTGGGCTCGATGATGACGTC 54 497 1980 Antisense
GGACCACCGATGAGCTTTTGTTGTA 233 523 2012 Antisense
Sequence Source Affymetrix Proprietary Database