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[192263_s_at] Zinc finger, C2H2 type

Description F37H8.1 /REP_DB=WormBase Gene ID /WP=CE15994 /GEN=lir-3 /TR=O17862 /GB=CAB04346.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Zinc finger, C2H2 type
Cluster 6grp_highest_10_10 > 06      6grp_high1_10_10 > 20      4grp_high_8_8 > 13      6grp_highest_nonorm > 90      6grp_total > 40      4grp_total > 27      6grp_highest_sub > 04      6grp_cgc > 72      6grp_cgc_sub > 02      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 118
1 2 3 4 range
A 104.3
(-0.8)
P 		178.4
(3)
A 		60.9
(-3)
P 		164.5
(2.3)
P 		118
B 103.7
(-0.8)
P 		87.2
(-3)
P 		133.1
(3)
P 		124.5
(1.9)
P 		46
C 112.6
(-2.3)
P 		138.2
(1.6)
P 		107.7
(-3)
P 		147.8
(3)
P 		40
avr 106.9
(-2.2) 		134.6
(1.5) 		100.6
(-3) 		145.6
(3) 		45

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 111
1 2 3 4 5 6 range
A 176.5
(3)
P 		126.8
(-1.2)
P 		142.1
(0.1)
P 		140.9
(0)
P 		104.7
(-3)
P 		139.9
(-0.1)
P 		72
B 132.1
(-1.4)
P 		149.5
(0.1)
P 		184.9
(3)
P 		162.5
(1.2)
P 		120.3
(-2.3)
P 		112.2
(-3)
P 		73
C 132.2
(-1.7)
P 		215.4
(3)
P 		149.3
(-0.7)
P 		196.3
(1.9)
P 		108.4
(-3)
P 		130.8
(-1.7)
P 		107
avr 146.9
(0.9) 		163.9
(2.7) 		158.8
(2.2) 		166.6
(3) 		111.1
(-3) 		127.6
(-1.2) 		56
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 24
1 2 3 4 range
A 38
(2.8)
P 		38.7
(3)
A 		15.9
(-3)
P 		24.1
(-0.8)
P 		23
B 33.1
(3)
P 		21.5
(-3)
P 		30.8
(1.8)
P 		26.5
(-0.4)
P 		12
C 37.3
(2)
P 		39.7
(3)
P 		37.5
(2.1)
P 		24.9
(-3)
P 		15
avr 36.1
(3) 		33.3
(1.5) 		28.1
(-1.4) 		25.2
(-3) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 35
1 2 3 4 5 6 range
A 32.5
(-2.3)
P 		45.1
(3)
P 		30.9
(-3)
P 		35.7
(-1)
P 		31.6
(-2.7)
P 		34.1
(-1.6)
P 		14
B 46
(0.2)
P 		49.7
(3)
P 		44.9
(-0.7)
P 		43
(-2.2)
P 		48.9
(2.4)
P 		41.9
(-3)
P 		8
C 49
(-0.3)
P 		65.7
(3)
P 		38
(-2.4)
P 		39.5
(-2.1)
P 		35.1
(-3)
P 		43.8
(-1.3)
P 		31
avr 42.5
(-1.2) 		53.5
(3) 		37.9
(-3) 		39.4
(-2.4) 		38.5
(-2.8) 		39.9
(-2.2) 		16
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192263_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3299
Sequence Type Exemplar sequence
Representative Public ID F37H8.1 NCBI
Target Description F37H8.1 /REP_DB=WormBase Gene ID /WP=CE15994 /GEN=lir-3 /TR=O17862 /GB=CAB04346.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Zinc finger, C2H2 type
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_063994(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063994 NCBI Caenorhabditis elegans LIn-26 Related family member (lir-3) (lir-3) mRNA, complete cds. 11/11 None
SNAP00000006626 ENSEMBL cdna:SNAP chromosome:CEL140:II:11183071:11184718:-1 11/11 None
GENEFINDER00000006631 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11183071:11184718:-1 11/11 None
F37H8.1 ENSEMBL cdna:known chromosome:CEL140:II:11183059:11184718:-1 gene:F37H8.1 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
chrII:11183067-11184715(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C2H2 type
Gene Symbol lir-3
Ensembl F37H8.1
Entrez Gene 174707 Entrez gene
SwissProt O17862 EMBL-EBI
WormBase CE15994 Wormbase
Functional Annotations
Gene Ontology
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
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB04346 Hypothetical protein F37H8.1 [Caenorhabditis elegans] ref|NP_496395.1| LIn-26 Related family member (lir-3) [Caenorhabditis elegans] 1.0E-146
blast CAE59554 Hypothetical protein CBG02951 [Caenorhabditis briggsae] 2.0E-80
blast AAK67248 Lin-26 related protein 2, isoform b [Caenorhabditis elegans] ref|NP_001022098.1| LIn-26 Related family member (lir-2) [Caenorhabditis elegans] emb|CAA10264.1| LIR-2B protein [Caenorhabditis elegans] 5.0E-13
Sequence
Target Sequence 
>C. ELEGANS:192263_S_AT
ttctatttccatcgttttcacaagtttcgaattcaatggtgacatctacgggcatccgac
aggaagcttcaagtgttggtgttggaccgattgaagacgacgatattgttgaggaggagg
aggaagaggatattcgacttactagcaagccgtgtgtcaaacgccgttatgatcatcacg
ccgaggaacaggagtatagagatcaactgatgagcttgttgagtggagaaccggaaattg
tgcctataggtgtcaactcgaacgacgaaccatctggctccaactcggattctgccgcga
aaaaggccaaatccgtcggcgactaccatgaatgtcagctctgtggagttcgagtcaaaa
cgcctagaagcggtcgatggaatctccaaatgcatgtgattgctcttcattgtgttggaa
gacaatataaatgcaagcagtgtgattacttggactatcgaaaatcaacgatgagaaaac
atacggtttcgcagcatggaagtgacattccgccgcat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCTATTTCCATCGTTTTCACAAGT 33 691 257 Antisense
CAATGGTGACATCTACGGGCATCCG 20 183 290 Antisense
ACGGGCATCCGACAGGAAGCTTCAA 589 93 304 Antisense
AAACGCCGTTATGATCATCACGCCG 465 123 415 Antisense
GTGCCTATAGGTGTCAACTCGAACG 279 465 496 Antisense
ACTCGAACGACGAACCATCTGGCTC 539 99 512 Antisense
CCAACTCGGATTCTGCCGCGAAAAA 618 263 536 Antisense
ATCCGTCGGCGACTACCATGAATGT 353 37 567 Antisense
GAATGTCAGCTCTGTGGAGTTCGAG 83 333 586 Antisense
GCATGTGATTGCTCTTCATTGTGTT 388 311 648 Antisense
GCATGGAAGTGACATTCCGCCGCAT 361 311 750 Antisense
Sequence Source Affymetrix Proprietary Database