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[176869_s_at] xnf7

Description ZK112.2 /REP_DB=WormBase Gene ID /WP=CE00373 /GEN=ncl-1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=xnf7
Cluster 4grp_high_8_8 > 06      6grp_total > 06      4grp_total > 27      6grp_cgc > 12      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 133
1 2 3 4 range
A 96.8
(-3)
A 		118.1
(3)
P 		98
(-2.7)
A 		113.7
(1.8)
P 		21
B 113.5
(1.7)
P 		87.5
(-2.4)
A 		83.5
(-3)
A 		121.9
(3)
P 		38
C 120
(-2.8)
P 		186.5
(1.2)
A 		117.3
(-3)
P 		216.4
(3)
P 		99
avr 110.1
(-1.8) 		130.7
(0.7) 		99.6
(-3) 		150.7
(3) 		51

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 198
1 2 3 4 5 6 range
A 150.9
(3)
A 		113.1
(0.3)
A 		76.7
(-2.4)
A 		78.9
(-2.2)
A 		95.2
(-1)
A 		68
(-3)
A 		83
B 125.1
(3)
A 		91
(0.2)
A 		68.6
(-1.7)
A 		86.6
(-0.2)
A 		53.2
(-3)
P 		94.2
(0.4)
P 		72
C 229.3
(3)
P 		109.3
(-0.6)
M 		80.3
(-1.5)
A 		31.6
(-3)
A 		75.6
(-1.7)
A 		31.6
(-3)
A 		198
avr 168.4
(3) 		104.5
(-0.7) 		75.2
(-2.4) 		65.7
(-2.9) 		74.7
(-2.4) 		64.6
(-3) 		104
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 37
1 2 3 4 range
A 35.2
(3)
A 		25.6
(-0.1)
P 		25.6
(-0.1)
A 		16.6
(-3)
P 		19
B 36.2
(3)
P 		21.6
(-2.2)
A 		19.3
(-3)
A 		26
(-0.6)
P 		17
C 39.7
(-1.9)
P 		53.6
(3)
A 		40.9
(-1.5)
P 		36.5
(-3)
P 		17
avr 37
(3) 		33.6
(1.1) 		28.6
(-1.8) 		26.4
(-3) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 79
1 2 3 4 5 6 range
A 27.8
(-0.2)
A 		40.2
(3)
A 		16.7
(-3)
A 		20
(-2.1)
A 		28.7
(0.1)
A 		16.6
(-3)
A 		24
B 43.5
(3)
A 		30.3
(0.1)
A 		16.6
(-3)
A 		22.9
(-1.6)
A 		21.6
(-1.9)
P 		35.1
(1.1)
P 		27
C 85
(3)
P 		33.3
(-0.9)
M 		20.4
(-1.9)
A 		6.3
(-3)
A 		24.5
(-1.6)
A 		10.6
(-2.7)
A 		79
avr 52.1
(3) 		34.6
(0.1) 		17.9
(-2.7) 		16.4
(-3) 		24.9
(-1.6) 		20.8
(-2.3) 		36
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 176869_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7543
Sequence Type Exemplar sequence
Representative Public ID ZK112.2 NCBI
Target Description ZK112.2 /REP_DB=WormBase Gene ID /WP=CE00373 /GEN=ncl-1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=xnf7
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_066283(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066283 NCBI Caenorhabditis elegans ZK112.2 (xnf7) mRNA, complete cds. 11/11 A 
GENEFINDER00000003620 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:7726218:7736274:1 11/11 None
SNAP00000003593 ENSEMBL cdna:SNAP chromosome:CEL140:III:7734584:7736274:1 11/11 None
ZK112.2 ENSEMBL cdna:known chromosome:CEL140:III:7731310:7737994:1 gene:ZK112.2 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
chrIII:7731441-7736272(+) 100.0 100.0
Public Domain and Genome References
Gene Title xnf7
Gene Symbol ncl-1
Ensembl ZK112.2
Entrez Gene 176084 Entrez gene
SwissProt P34611 EMBL-EBI
WormBase CE00373 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1639217_S_AT brain tumor dm
DROSGENOME1:153872_AT brain tumor dm
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
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
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA28185 Abnormal nucleoli protein 1 [Caenorhabditis elegans] ref|NP_498684.1| ZK112.2 [Caenorhabditis elegans] sp|P34611|NCL1_CAEEL B-box type zinc-finger protein ncl-1 gb|AAC14263.1| B box zinc finger protein Ncl-1 [Caenorhabditis elegans] 0.0
blast CAE66868 Hypothetical protein CBG12245 [Caenorhabditis briggsae] 0.0
blast XP_396305 PREDICTED: similar to ENSANGP00000006075 [Apis mellifera] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000315 EMBL-EBI Zn-finger, B-box 5.3E-13
Pfam IPR000315 EMBL-EBI Zn-finger, B-box 2.9E-7
Pfam IPR001258 EMBL-EBI NHL repeat 1.3E-12
Pfam IPR001258 EMBL-EBI NHL repeat 4.3E-6
Pfam IPR001258 EMBL-EBI NHL repeat 5.5E-8
Pfam IPR001258 EMBL-EBI NHL repeat 4.9E-7
Pfam IPR001258 EMBL-EBI NHL repeat 6.6E-5
Pfam IPR001841 EMBL-EBI Zn-finger, RING 3.5E-13
Pfam IPR001258 EMBL-EBI NHL repeat 1.3E-12
Pfam IPR001258 EMBL-EBI NHL repeat 4.3E-6
Pfam IPR001258 EMBL-EBI NHL repeat 5.5E-8
Pfam IPR001258 EMBL-EBI NHL repeat 4.9E-7
Pfam IPR001258 EMBL-EBI NHL repeat 6.6E-5
Pfam IPR000315 EMBL-EBI Zn-finger, B-box 5.3E-13
Pfam IPR000315 EMBL-EBI Zn-finger, B-box 2.9E-7
Pfam IPR001258 EMBL-EBI NHL repeat 1.3E-12
Pfam IPR001258 EMBL-EBI NHL repeat 4.3E-6
Pfam IPR001258 EMBL-EBI NHL repeat 5.5E-8
Pfam IPR001258 EMBL-EBI NHL repeat 4.9E-7
Pfam IPR001258 EMBL-EBI NHL repeat 6.6E-5
Sequence
Target Sequence 
>C. ELEGANS:176869_S_AT
accggcgactttgttgtcactgagagatcgccaactcatcagattcaagtgtacaaccag
tatgggcaattcttgcgtaaattcggcgccaatatcctccaacatccacgtggagtgtgt
gttgatagcaagggacgcatcattgttgttgagtgcaaggtcatgcgtgtaatcattttc
gatatgttcggcaacatcttgcaaaagttctcatgctctcgctatctcgagttccccaac
ggcgtgtgcaccaacgacaagaacgagattctgatatctgataaccgtgctcattgcatc
aaggtgttctcctacgaaggacaatatcttcgccaaatcggaggcgagggagtcaccaat
tacccaattggggttggaatcaactctcttggagaagtagttgtcgctgataaccacaac
aacttcaacttgactgtcttctctcaggatggaaccatgattggagctcttgagtcacgt
gtcaagcacgctcagtgcttcgatgttgctcttgtt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACCGGCGACTTTGTTGTCACTGAGA 522 87 1945 Antisense
GAGAGATCGCCAACTCATCAGATTC 379 395 1966 Antisense
AATTCTTGCGTAAATTCGGCGCCAA 492 175 2012 Antisense
GCAAAAGTTCTCATGCTCTCGCTAT 272 319 2145 Antisense
GATATCTGATAACCGTGCTCATTGC 310 425 2217 Antisense
GCTCATTGCATCAAGGTGTTCTCCT 289 301 2233 Antisense
GGAGGCGAGGGAGTCACCAATTACC 533 487 2284 Antisense
TCAACTTGACTGTCTTCTCTCAGGA 443 629 2369 Antisense
GATTGGAGCTCTTGAGTCACGTGTC 201 435 2403 Antisense
GTCACGTGTCAAGCACGCTCAGTGC 601 465 2418 Antisense
TCAGTGCTTCGATGTTGCTCTTGTT 670 623 2436 Antisense
Sequence Source Affymetrix Proprietary Database