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[190514_at] Zinc finger, C2H2 type

Description R10E4.11 /REP_DB=WormBase Gene ID /WP=CE03565 /TR=Q21907 /GB=CAA90770.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Zinc finger, C2H2 type
Cluster 4grp_high_8_8 > 07      6grp_total > 45      4grp_total > 03      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 89
1 2 3 4 range
A 93.6
(2.7)
P 		67.5
(0.1)
P 		37.3
(-3)
A 		96.4
(3)
P 		59
B 69.3
(-1.4)
P 		77.9
(0)
A 		59.9
(-3)
M 		95.5
(3)
P 		36
C 39.2
(-2.8)
A 		36.8
(-3)
A 		82
(0)
P 		125.8
(3)
P 		89
avr 67.4
(-2) 		60.7
(-2.9) 		59.7
(-3) 		105.9
(3) 		46

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 91
1 2 3 4 5 6 range
A 73.6
(3)
A 		51.9
(1.1)
A 		41
(0.1)
A 		6.5
(-3)
A 		31.5
(-0.8)
A 		62
(2)
A 		67
B 44.7
(-0.6)
A 		84.2
(2.4)
P 		80.9
(2.1)
M 		26.1
(-2.1)
A 		13.9
(-3)
A 		92.5
(3)
P 		79
C 40
(-1)
A 		97
(3)
P 		50.7
(-0.2)
A 		11.4
(-3)
A 		35.9
(-1.3)
A 		47.1
(-0.5)
P 		86
avr 52.8
(0.6) 		77.7
(3) 		57.5
(1.1) 		14.7
(-3) 		27.1
(-1.8) 		67.2
(2) 		63
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 24
1 2 3 4 range
A 34.1
(3)
P 		14.6
(-1.8)
P 		9.8
(-3)
A 		14.1
(-1.9)
P 		24
B 22.1
(3)
P 		19.2
(0.9)
A 		13.9
(-3)
M 		20.4
(1.8)
P 		8
C 13
(-2.2)
A 		10.6
(-3)
A 		28.6
(3)
P 		21.2
(0.5)
P 		18
avr 23.1
(3) 		14.8
(-3) 		17.4
(-1.1) 		18.6
(-0.3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 33
1 2 3 4 5 6 range
A 13.6
(1.3)
A 		18.5
(3)
A 		8.9
(-0.4)
A 		1.7
(-3)
A 		9.5
(-0.2)
A 		15.1
(1.8)
A 		17
B 15.6
(-0.9)
A 		28
(1.6)
P 		19.6
(-0.1)
M 		6.9
(-2.8)
A 		5.7
(-3)
A 		34.5
(3)
P 		29
C 14.8
(-0.3)
A 		29.6
(3)
P 		12.9
(-0.7)
A 		2.3
(-3)
A 		11.6
(-1)
A 		15.8
(-0)
P 		27
avr 14.7
(0.1) 		25.4
(3) 		13.8
(-0.2) 		3.6
(-3) 		8.9
(-1.5) 		21.8
(2) 		22
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190514_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7468
Sequence Type Exemplar sequence
Representative Public ID R10E4.11 NCBI
Target Description R10E4.11 /REP_DB=WormBase Gene ID /WP=CE03565 /TR=Q21907 /GB=CAA90770.1 /SUBMIT=HINXTON /CHR=3 /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_065462(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065462 NCBI Caenorhabditis elegans R10E4.11 (R10E4.11) mRNA, complete cds. 11/11 None
SNAP00000016400 ENSEMBL cdna:SNAP chromosome:CEL140:III:4297456:4301214:-1 11/11 None
GENEFINDER00000016411 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:4299306:4302351:-1 11/11 None
R10E4.11 ENSEMBL cdna:known chromosome:CEL140:III:4299411:4300994:-1 gene:R10E4.11 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
chrIII:4299410-4300994(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C2H2 type
Ensembl R10E4.11
Entrez Gene 175554 Entrez gene
SwissProt Q21907 EMBL-EBI
WormBase CE03565 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 AAC68936 Hypothetical protein T12B5.6 [Caenorhabditis elegans] ref|NP_497296.1| T12B5.6 [Caenorhabditis elegans] 0.0
blast T18779 transposase containing protein - Caenorhabditis elegans 0.0
blast T32726 hypothetical protein C45H4.5 - Caenorhabditis elegans 0.0
blast CAA90770 Hypothetical protein R10E4.11 [Caenorhabditis elegans] ref|NP_497863.1| R10E4.11 [Caenorhabditis elegans] 1.0E-153
blast CAA90770 Hypothetical protein R10E4.11 [Caenorhabditis elegans] ref|NP_497863.1| R10E4.11 [Caenorhabditis elegans] 1.0E-151
blast CAA90769 Hypothetical protein R10E4.9 [Caenorhabditis elegans] ref|NP_497864.1| R10E4.9 [Caenorhabditis elegans] 1.0E-104
blast CAE73717 Hypothetical protein CBG21231 [Caenorhabditis briggsae] 4.0E-66
blast CAE66919 Hypothetical protein CBG12307 [Caenorhabditis briggsae] 1.0E-42
Protein Domains
Database ID Description E-Value
Pfam IPR001888 EMBL-EBI Transposase, type 1 2.8E-41
Pfam IPR007482 EMBL-EBI Protein tyrosine phosphatase-like protein, PTPLA 6.0E-61
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000016411 5 7-29,39-61,68-90,134-153,165-184
Sequence
Target Sequence 
>C. ELEGANS:190514_AT
gatattcaaattctgccatctccaccgaaaatgtatgcctgttcgtgtggaaaacgatta
aaaacgcattctgattgtcataaacatattttcgacgagcacggagatcacgacatcaaa
gcggattgcttagagtgtggaaaccgtctcaatgatattcgaacgaacaatcaatgctca
gtatgcaaaagctacgccgaaaatgtcgaagaacacgaaaaatcacattatcgaacaagt
actagtaagcatgctgtgatggagtgccgctactgtgtcagacaattcagaaccgtaaag
gaagtaatcgagcacgaaaaagagaagcatttggcaaaacctctccgaaaaacgcaattt
ttcaaatgtaacgaatgttccgttgtattcacaagtcaagaagttctcactggtcattac
ggtgatcatgttgacctgaatctct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATATTCAAATTCTGCCATCTCCAC 414 427 427 Antisense
TCTCCACCGAAAATGTATGCCTGTT 564 607 445 Antisense
GACGAGCACGGAGATCACGACATCA 579 379 520 Antisense
GTGTGGAAACCGTCTCAATGATATT 129 489 561 Antisense
GCTCAGTATGCAAAAGCTACGCCGA 317 299 602 Antisense
CATGCTGTGATGGAGTGCCGCTACT 157 211 676 Antisense
GTGCCGCTACTGTGTCAGACAATTC 373 477 690 Antisense
GAAGCATTTGGCAAAACCTCTCCGA 516 341 750 Antisense
AATGTTCCGTTGTATTCACAAGTCA 416 163 800 Antisense
AGAAGTTCTCACTGGTCATTACGGT 407 73 825 Antisense
GGTGATCATGTTGACCTGAATCTCT 106 501 847 Antisense
Sequence Source Affymetrix Proprietary Database