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[190543_at] Zinc finger, C2H2 type

Description Y40B1A.4 /REP_DB=WormBase Gene ID /WP=CE21789 /TR=Q9XW26 /GB=CAA22307.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Zinc finger, C2H2 type
Cluster 6grp_total > 85      4grp_total > 03      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 107
1 2 3 4 range
A 62.3
(0.1)
P 		57.2
(-0.3)
P 		21.1
(-3)
A 		100.6
(3)
A 		80
B 45.2
(-2.2)
A 		50.3
(-1.4)
A 		39.5
(-3)
A 		80.1
(3)
P 		41
C 23.6
(-2.3)
A 		10.4
(-3)
A 		47.7
(-0.9)
A 		117.8
(3)
P 		107
avr 43.7
(-2.3) 		39.3
(-2.7) 		36.1
(-3) 		99.5
(3) 		63

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 58
1 2 3 4 5 6 range
A 9.5
(-3)
A 		19.9
(-0.9)
A 		33.2
(1.7)
P 		39.9
(3)
P 		38.7
(2.8)
A 		27.8
(0.6)
A 		30
B 25.3
(-3)
A 		29.4
(-2.3)
A 		42.8
(-0.2)
P 		34.1
(-1.6)
A 		39.9
(-0.7)
P 		63
(3)
P 		38
C 17.6
(-3)
A 		36
(-0.8)
A 		23.5
(-2.3)
A 		43.1
(0.1)
A 		40.1
(-0.3)
A 		67.3
(3)
P 		50
avr 17.5
(-3) 		28.4
(-1.1) 		33.2
(-0.3) 		39
(0.7) 		39.6
(0.8) 		52.7
(3) 		35
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 22.7
(3)
P 		12.4
(-0.6)
P 		5.5
(-3)
A 		14.7
(0.2)
A 		17
B 14.4
(1)
A 		12.4
(-0.5)
A 		9.1
(-3)
A 		17.1
(3)
P 		8
C 7.8
(-1.3)
A 		3
(-3)
A 		16.6
(1.8)
A 		19.9
(3)
P 		17
avr 15
(1.3) 		9.3
(-3) 		10.4
(-2.2) 		17.2
(3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 22
1 2 3 4 5 6 range
A 1.8
(-3)
A 		7.1
(0.2)
A 		7.2
(0.3)
P 		10.1
(2)
P 		11.7
(3)
A 		6.8
(0)
A 		10
B 8.8
(-3)
A 		9.8
(-2.6)
A 		10.4
(-2.3)
P 		9
(-2.9)
A 		16.2
(0)
P 		23.5
(3)
P 		15
C 6.5
(-2.8)
A 		11
(-1.2)
A 		6
(-3)
A 		8.7
(-2)
A 		13
(-0.5)
A 		22.5
(3)
P 		17
avr 5.7
(-3) 		9.3
(-1.2) 		7.9
(-1.9) 		9.3
(-1.2) 		13.6
(1) 		17.6
(3) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190543_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.696
Sequence Type Exemplar sequence
Representative Public ID Y40B1A.4 NCBI
Target Description Y40B1A.4 /REP_DB=WormBase Gene ID /WP=CE21789 /TR=Q9XW26 /GB=CAA22307.1 /SUBMIT=HINXTON /CHR=1 /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_060952(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060952 NCBI Caenorhabditis elegans Y40B1A.4 (Y40B1A.4) mRNA, complete cds. 10/11 None
SNAP00000031121 ENSEMBL cdna:SNAP chromosome:CEL140:I:13368794:13374941:-1 10/11 None
GENEFINDER00000031124 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:13368794:13373725:-1 11/11 None
Y40B1A.4 ENSEMBL cdna:known chromosome:CEL140:I:13368794:13372269:-1 gene:Y40B1A.4 10/11 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:13368724-13372200(-) 96.01 100.0
Public Domain and Genome References
Gene Title Zinc finger, C2H2 type
Ensembl Y40B1A.4
Entrez Gene 189783 Entrez gene
SwissProt Q9XW26 EMBL-EBI
WormBase CE34509 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.20394.1.S1_AT similar to trans-acting transcription factor 3 isoform 1 cfa
CHICKEN:GGA.13404.1.S1_S_AT Sp3 transcription factor gga
CHICKEN:GGA.2337.1.S1_S_AT Sp3 transcription factor gga
CHICKEN:GGA.2337.1.S2_AT Sp3 transcription factor gga
CHICKEN:GGA.2337.1.S2_S_AT Sp3 transcription factor gga
CHICKEN:GGA.13404.1.S1_AT Sp3 transcription factor gga
HG-U133_PLUS_2:213168_AT Sp3 transcription factor hs
HG-U133A_2:213168_AT Sp3 transcription factor hs
HG-U133A:213168_AT Sp3 transcription factor hs
HUGENEFL:X68560_AT Sp3 transcription factor hs
U133_X3P:HS.44450.1.A1_3P_AT Sp3 transcription factor hs
U133_X3P:HS.154295.0.A1_3P_X_AT Sp3 transcription factor hs
U133_X3P:HS.154295.0.A1_3P_AT Sp3 transcription factor hs
U133_X3P:HS.120770.0.A1_3P_AT Sp3 transcription factor hs
HG-U133_PLUS_2:229217_AT Sp3 transcription factor hs
HG-U133B:229217_AT Sp3 transcription factor hs
HG-U133_PLUS_2:238035_AT Sp3 transcription factor hs
HG-U133B:238035_AT Sp3 transcription factor hs
HG-U95AV2:41573_AT Sp3 transcription factor hs
HG-U95E:81493_AT Sp3 transcription factor hs
HG-U95E:90572_AT Sp3 transcription factor hs
HG-U133_PLUS_2:227537_S_AT Sp3 transcription factor hs
HG-U133B:227537_S_AT Sp3 transcription factor hs
U133_X3P:HS.188325.0.S1_3P_AT Sp3 transcription factor hs
HG-U133_PLUS_2:232529_AT Sp3 transcription factor hs
HG-U133B:232529_AT Sp3 transcription factor hs
HG-U95D:87129_AT Sp3 transcription factor hs
HG-U133_PLUS_2:1557804_AT Sp3 transcription factor hs
HG-U95C:52328_AT Sp3 transcription factor hs
HG-U95C:66614_AT Sp3 transcription factor hs
U133_X3P:HS.44450.0.A1_3P_AT Sp3 transcription factor hs
U133_X3P:HS2.385256.1.A1_3P_AT Sp3 transcription factor hs
MOUSE430A_2:1431804_A_AT trans-acting transcription factor 3 mm
MOUSE430_2:1431804_A_AT trans-acting transcription factor 3 mm
MOE430A:1431804_A_AT trans-acting transcription factor 3 mm
MG-U74AV2:96192_AT trans-acting transcription factor 3 mm
MOE430B:1459360_AT Trans-acting transcription factor 3, mRNA (cDNA clone MGC:38209 IMAGE:5323205) mm
MOUSE430_2:1459360_AT Trans-acting transcription factor 3, mRNA (cDNA clone MGC:38209 IMAGE:5323205) mm
MU19KSUBA:TC21976_AT Trans-acting transcription factor 3, mRNA (cDNA clone MGC:38209 IMAGE:5323205) mm
MU19KSUBC:TC37048_AT Trans-acting transcription factor 3, mRNA (cDNA clone MGC:38209 IMAGE:5323205) mm
RG-U34B:RC_AI059048_AT Sp3 transcription factor rn
RAE230A:1375384_AT Sp3 transcription factor rn
RAT230_2:1375384_AT Sp3 transcription factor rn
RAE230A:1389879_AT Sp3 transcription factor rn
RAT230_2:1389879_AT Sp3 transcription factor rn
RG-U34C:RC_AI070579_AT Sp3 transcription factor rn
RG-U34C:RC_AI237823_AT Sp3 transcription factor rn
RAE230B:1393471_AT Sp3 transcription factor rn
RAT230_2:1393471_AT Sp3 transcription factor rn
RAE230B:1397734_AT Sp3 transcription factor rn
RAT230_2:1397734_AT Sp3 transcription factor rn
RG-U34B:RC_AI008907_AT Sp3 transcription factor rn
RG-U34C:RC_AI175908_AT Sp3 transcription factor rn
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 CAA22307 Hypothetical protein Y40B1A.4 [Caenorhabditis elegans] ref|NP_493353.2| Y40B1A.4 [Caenorhabditis elegans] 1.0E-110
blast CAA22307 Hypothetical protein Y40B1A.4 [Caenorhabditis elegans] ref|NP_493353.2| Y40B1A.4 [Caenorhabditis elegans] 2.0E-99
blast CAE73021 Hypothetical protein CBG20386 [Caenorhabditis briggsae] 4.0E-83
blast CAE73021 Hypothetical protein CBG20386 [Caenorhabditis briggsae] 1.0E-82
blast CAE73021 Hypothetical protein CBG20386 [Caenorhabditis briggsae] 4.0E-81
blast AAL23671 Sp3 transcription factor [Fundulus heteroclitus] 2.0E-41
Protein Domains
Database ID Description E-Value
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 3.9E-7
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 5.6E-6
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 3.9E-7
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 5.6E-6
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 3.9E-7
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 5.6E-6
Sequence
Target Sequence 
>C. ELEGANS:190543_AT
gaccaccagttgcaggaccatctgctccagcgagaaaaccgaatcaaatccaacatcgtc
aaatgattccacaaatgaacgaggatggaatgatgaatatgggaaatgattatggagata
ttaatggacaaggactcggtgaagcaccaaaaagatgtgcatgcacgtgtccaaattgtt
tacagcagaataatcgacagtttttactgaatcaaaaaaattattttgagaaattccctc
aaatttcgctcaaaaaaaaaattttttttttcatattttccaatttcagaggagacggaa
aaagtcgaattcacatttgtcatttatgcaacaaaacatacggaaaaacgtctcatttga
gagcacatttacgtggacacgctggtaataaaccatttgcatgtgattggcaacattgta
ataagaagtttacaagaagcgacgaacttcaacgtcatcgacgaacccacactggagaga
aacgattcgcgtgtaatcactgtgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACCACCAGTTGCAGGACCATCTGC 645 383 110 Antisense
GACCATCTGCTCCAGCGAGAAAACC 566 383 125 Antisense
ATCCAACATCGTCAAATGATTCCAC 219 39 157 Antisense
GGACAAGGACTCGGTGAAGCACCAA 540 525 235 Antisense
GTGCATGCACGTGTCCAAATTGTTT 366 481 266 Antisense
GAAATTCCCTCAAATTTCGCTCAAA 440 363 339 Antisense
AAAAGTCGAATTCACATTTGTCATT 401 131 409 Antisense
GAGAGCACATTTACGTGGACACGCT 260 395 468 Antisense
AGAAGCGACGAACTTCAACGTCATC 129 75 544 Antisense
CAACGTCATCGACGAACCCACACTG 435 187 559 Antisense
AACGATTCGCGTGTAATCACTGTGG 230 143 590 Antisense
Sequence Source Affymetrix Proprietary Database