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[189909_at] zinc finger protein

Description ZC123.3 /REP_DB=WormBase Gene ID /WP=CE28153 /TR=O45019 /GB=AAB97603.3 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_total > 38      4grp_total > 46      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 102
1 2 3 4 range
A 74.5
(3)
P 		42.4
(0.1)
A 		13.7
(-2.4)
A 		7
(-3)
A 		68
B 109.4
(3)
P 		26.6
(-2.2)
A 		13.2
(-3)
A 		52.4
(-0.6)
A 		96
C 53.3
(3)
A 		42.3
(1.5)
A 		12
(-2.7)
A 		10.1
(-3)
A 		43
avr 79.1
(3) 		37.1
(-0.8) 		13
(-3) 		23.2
(-2.1) 		66

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 42
1 2 3 4 5 6 range
A 12.2
(-2.1)
A 		18.8
(-0.9)
A 		7.3
(-3)
A 		13.6
(-1.9)
A 		12.9
(-2)
A 		40.3
(3)
A 		33
B 32.7
(1.4)
A 		43
(3)
A 		5.8
(-2.7)
A 		3.8
(-3)
A 		4.1
(-3)
A 		7.4
(-2.4)
A 		39
C 45.6
(3)
A 		11.6
(-2.3)
A 		7.3
(-3)
A 		7.7
(-2.9)
A 		33.6
(1.1)
A 		12.9
(-2.1)
A 		38
avr 30.2
(3) 		24.5
(1.5) 		6.8
(-3) 		8.4
(-2.6) 		16.9
(-0.4) 		20.2
(0.4) 		23
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 34
1 2 3 4 range
A 27.1
(3)
P 		9.2
(-1.1)
A 		3.6
(-2.4)
A 		1
(-3)
A 		26
B 34.9
(3)
P 		6.6
(-2.3)
A 		3.1
(-3)
A 		11.2
(-1.5)
A 		32
C 17.7
(3)
A 		12.2
(0.9)
A 		4.2
(-2.1)
A 		1.7
(-3)
A 		16
avr 26.6
(3) 		9.3
(-1.5) 		3.6
(-3) 		4.6
(-2.7) 		23

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 16
1 2 3 4 5 6 range
A 2.3
(-2.5)
A 		6.7
(0.7)
A 		1.6
(-3)
A 		3.5
(-1.6)
A 		3.9
(-1.3)
A 		9.8
(3)
A 		8
B 11.4
(1.7)
A 		14.3
(3)
A 		1.4
(-2.8)
A 		1
(-3)
A 		1.7
(-2.7)
A 		2.8
(-2.2)
A 		13
C 16.9
(3)
A 		3.5
(-2.3)
A 		1.9
(-2.9)
A 		1.6
(-3)
A 		10.9
(0.6)
A 		4.3
(-1.9)
A 		15
avr 10.2
(3) 		8.2
(1.6) 		1.6
(-3) 		2
(-2.7) 		5.5
(-0.3) 		5.6
(-0.2) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189909_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9
Sequence Type Exemplar sequence
Representative Public ID ZC123.3 NCBI
Target Description ZC123.3 /REP_DB=WormBase Gene ID /WP=CE28153 /TR=O45019 /GB=AAB97603.3 /SUBMIT=ST.LOUIS /CHR=1 /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_058380(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058380 NCBI Caenorhabditis elegans ZC123.3 (ZC123.3) mRNA, complete cds. 11/11 None
GENEFINDER00000024256 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:822185:841658:1 11/11 None
SNAP00000024252 ENSEMBL cdna:SNAP chromosome:CEL140:I:827737:834670:1 11/11 None
ZC123.3 ENSEMBL cdna:known chromosome:CEL140:I:803404:835286:1 gene:ZC123.3 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
chrI:803403-833310(+) 97.95 97.95
Public Domain and Genome References
Gene Title zinc finger protein
Ensembl ZC123.3
Entrez Gene 171670 Entrez gene
SwissProt O45019 EMBL-EBI
WormBase CE28153 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
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB97603 Hypothetical protein ZC123.3 [Caenorhabditis elegans] ref|NP_490781.1| ZC123.3 [Caenorhabditis elegans] 0.0
blast H87721 protein ZC123.2 [imported] - Caenorhabditis elegans 0.0
blast CAE61304 Hypothetical protein CBG05137 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 3.99999998401679E-11
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 2.99999990127642E-11
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 1.99999999200839E-11
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 2.99999990500336E-15
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 2.99999989294975E-8
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 4.00000001450997E-15
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 9.9999998245167E-15
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 5.99999984842725E-5
Pfam IPR001356 EMBL-EBI Homeobox 2.5E-11
Pfam IPR001356 EMBL-EBI Homeobox 1.3E-21
Pfam IPR001356 EMBL-EBI Homeobox 2.3E-19
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 2.1E-4
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 1.1E-4
Pfam IPR001356 EMBL-EBI Homeobox 0.051
Pfam IPR001356 EMBL-EBI Homeobox 0.013
Pfam IPR001356 EMBL-EBI Homeobox 1.3E-21
Pfam IPR001356 EMBL-EBI Homeobox 2.3E-19
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 1.1E-4
Pfam IPR001356 EMBL-EBI Homeobox 2.5E-11
Pfam IPR001356 EMBL-EBI Homeobox 1.3E-21
Pfam IPR001356 EMBL-EBI Homeobox 2.3E-19
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000024256 2 1308-1330,1343-1365
Sequence
Target Sequence 
>C. ELEGANS:189909_AT
aagcgtgtcgttcaagtctggtttcaaaatgcgcgagccaaagagcgaaagacgcgcggt
gcagttgacgaggactctcgatccggagaacttcactgtgaaatttgtgataagacgttc
gcgacgaggctttcgctgcaagaccatctgtttgccgagcagcacattgaatttttaagg
aataatctgaaacgggaaggggtctccgagttgacgaccgcttcggtgaccgagtgctct
ccagagaaaaaagcaaagcttccgaacccgctggatcttgccagtttcccgttcctcaac
acgttcgacattcaaatttacggaacacccatcgcctttctgcaggtgcctgatgagatc
aaaaagcagatcactgatgatatcacggctggaaaatcgcgaaccacgttctcccaggac
ggttttccgctcgacaagttgaaagagtcgctgcccgaggatgagaaatcaaatttgaca
gtaacccagaaagatgtcggatgggcgtgcccggcatgtacatttgtcttccaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGCGTGTCGTTCAAGTCTGGTTTC 679 143 4171 Antisense
GAAAGACGCGCGGTGCAGTTGACGA 103 361 4217 Antisense
GAGGACTCTCGATCCGGAGAACTTC 419 403 4240 Antisense
TTCGCGACGAGGCTTTCGCTGCAAG 306 695 4288 Antisense
GCAAGACCATCTGTTTGCCGAGCAG 587 317 4308 Antisense
TTCCTCAACACGTTCGACATTCAAA 612 699 4462 Antisense
CAAATTTACGGAACACCCATCGCCT 60 191 4483 Antisense
CGCCTTTCTGCAGGTGCCTGATGAG 537 257 4503 Antisense
GGCTGGAAAATCGCGAACCACGTTC 274 539 4557 Antisense
CAAGTTGAAAGAGTCGCTGCCCGAG 555 183 4605 Antisense
CCCGGCATGTACATTTGTCTTCCAA 149 261 4680 Antisense
Sequence Source Affymetrix Proprietary Database