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[192982_at] Zinc finger, C3HC4 type (RING finger)

Description Y38F1A.2 /REP_DB=WormBase Gene ID /WP=CE21607 /TR=Q9XWM0 /GB=CAA21635.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Zinc finger, C3HC4 type (RING finger)
Cluster 6grp_total > 39      4grp_total > 22      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 188
1 2 3 4 range
A 197.8
(0.4)
A 		92.1
(-3)
A 		118.6
(-2.2)
A 		280
(3)
A 		188
B 209.4
(3)
A 		187.6
(-0.3)
A 		180.8
(-1.3)
A 		169.9
(-3)
A 		40
C 208
(3)
A 		204.9
(2.6)
A 		158.6
(-3)
A 		186.1
(0.3)
A 		49
avr 205.1
(2.3) 		161.5
(-2.1) 		152.7
(-3) 		212
(3) 		59

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 146
1 2 3 4 5 6 range
A 189.4
(-0.5)
A 		195.7
(0.5)
A 		193.3
(0.1)
A 		172.6
(-3)
A 		212.3
(3)
A 		212
(3)
A 		40
B 192
(1.2)
A 		140.3
(-3)
A 		157
(-1.6)
A 		152.8
(-2)
A 		214
(3)
M 		163.2
(-1.1)
A 		74
C 242.5
(3)
A 		159.5
(-0.4)
A 		191.8
(0.9)
A 		96.2
(-3)
A 		234.9
(2.7)
P 		206.5
(1.5)
P 		146
avr 208
(2.1) 		165.2
(-1.1) 		180.7
(0) 		140.5
(-3) 		220.4
(3) 		193.9
(1) 		80
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 52
1 2 3 4 range
A 72
(3)
A 		20
(-3)
A 		31
(-1.7)
A 		41
(-0.6)
A 		52
B 66.8
(3)
A 		46.3
(-1)
A 		41.9
(-1.9)
A 		36.2
(-3)
A 		31
C 68.9
(3)
A 		58.9
(1.4)
A 		55.3
(0.8)
A 		31.4
(-3)
A 		38
avr 69.2
(3) 		41.7
(-2) 		42.7
(-1.8) 		36.2
(-3) 		33

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 71
1 2 3 4 5 6 range
A 34.9
(-3)
A 		69.6
(3)
A 		42.1
(-1.8)
A 		43.8
(-1.5)
A 		64.1
(2)
A 		51.6
(-0.1)
A 		35
B 66.8
(0.5)
A 		46.7
(-1.9)
A 		38.1
(-3)
A 		40.5
(-2.7)
A 		87
(3)
M 		60.9
(-0.2)
A 		49
C 89.9
(3)
A 		48.7
(-0.5)
A 		48.8
(-0.5)
A 		19.3
(-3)
A 		76
(1.8)
P 		69.1
(1.2)
P 		71
avr 63.9
(1.3) 		55
(-0) 		43
(-1.8) 		34.5
(-3) 		75.7
(3) 		60.5
(0.8) 		41
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192982_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2857
Sequence Type Exemplar sequence
Representative Public ID Y38F1A.2 NCBI
Target Description Y38F1A.2 /REP_DB=WormBase Gene ID /WP=CE21607 /TR=Q9XWM0 /GB=CAA21635.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Zinc finger, C3HC4 type (RING finger)
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_064359(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064359 NCBI Caenorhabditis elegans Y38F1A.2 (Y38F1A.2) mRNA, complete cds. 11/11 A 
GENEFINDER00000020291 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:12954877:12957779:1 11/11 None
Y38F1A.2 ENSEMBL cdna:known chromosome:CEL140:II:12954877:12957902:1 gene:Y38F1A.2 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000020277 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:12954873-12957776(+) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C3HC4 type (RING finger)
Ensembl Y38F1A.2
Entrez Gene 174939 Entrez gene
SwissProt Q9XWM0 EMBL-EBI
WormBase CE21607 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:261938_AT zinc finger (C3HC4-type RING finger) family protein at
CANINE:1604806_AT similar to ring finger protein 170 cfa
CANINE_2:CFAAFFX.9056.1.S1_S_AT similar to ring finger protein 170 cfa
CANINE_2:CFAAFFX.9057.1.S1_AT similar to ring finger protein 170 cfa
CHICKEN:GGA.10132.1.S1_AT similar to hypothetical protein DKFZp564A022 gga
HG-U133_PLUS_2:220985_S_AT ring finger protein 170 hs
HG-U133A:220985_S_AT ring finger protein 170 hs
HG-U133A_2:220985_S_AT ring finger protein 170 hs
U133_X3P:G13569925_3P_S_AT ring finger protein 170 hs
U133_X3P:HS2.189921.1.S1_3P_AT ring finger protein 170 hs
U133_X3P:HS2.189921.1.S1_3P_S_AT ring finger protein 170 hs
HG-U133_PLUS_2:1554312_AT ring finger protein 170 hs
HG-U95D:72713_AT ring finger protein 170 hs
HG-U95E:84608_AT ring finger protein 170 hs
HG-U95D:87512_AT ring finger protein 170 hs
HG-U133_PLUS_2:226104_AT Ring finger protein 170 hs
HG-U133B:226104_AT Ring finger protein 170 hs
U133_X3P:HS.22629.0.A1_3P_AT Ring finger protein 170 hs
HG-U95B:49530_AT Ring finger protein 170 hs
HU35KSUBB:RC_N63070_AT Ring finger protein 170 hs
HU35KSUBC:RC_C21022_AT Ring finger protein 170 hs
MOE430B:1431195_AT ring finger protein 170 mm
MOUSE430_2:1431195_AT ring finger protein 170 mm
MOE430B:1437207_AT ring finger protein 170 mm
MOUSE430_2:1437207_AT ring finger protein 170 mm
MOE430B:1460131_AT Ring finger protein 170, mRNA (cDNA clone IMAGE:5027688) mm
MOUSE430_2:1460131_AT Ring finger protein 170, mRNA (cDNA clone IMAGE:5027688) mm
MU19KSUBC:TC35413_AT Ring finger protein 170, mRNA (cDNA clone IMAGE:5027688) mm
Protein Similarities
Method ID Description E-Value
blast CAA21635 Hypothetical protein Y38F1A.2 [Caenorhabditis elegans] ref|NP_496760.1| Y38F1A.2 [Caenorhabditis elegans] 1.0E-151
blast CAA21635 Hypothetical protein Y38F1A.2 [Caenorhabditis elegans] ref|NP_496760.1| Y38F1A.2 [Caenorhabditis elegans] 1.0E-146
blast CAE59401 Hypothetical protein CBG02764 [Caenorhabditis briggsae] 1.0E-75
blast CAE59401 Hypothetical protein CBG02764 [Caenorhabditis briggsae] 7.0E-75
blast AAH69061 Zgc:65779 protein [Danio rerio] gb|AAH56330.1| Hypothetical protein LOC406612 [Danio rerio] ref|NP_999915.1| hypothetical protein LOC406612 [Danio rerio] 1.0E-25
blast AAH69061 Zgc:65779 protein [Danio rerio] gb|AAH56330.1| Hypothetical protein LOC406612 [Danio rerio] ref|NP_999915.1| hypothetical protein LOC406612 [Danio rerio] 2.0E-25
Protein Domains
Database ID Description E-Value
Pfam IPR001841 EMBL-EBI Zn-finger, RING 1.6E-9
Pfam IPR001841 EMBL-EBI Zn-finger, RING 1.6E-9
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_496760.1 3 46-64,216-238,248-270
Y38F1A.2 3 46-64,216-238,248-270
GENEFINDER00000020291 3 83-101,253-275,285-307
Sequence
Target Sequence 
>C. ELEGANS:192982_AT
gccgccagccgcatggatgaaaacgccgagcgaaaccaaataattacgcagagaagaatc
agtgaagctctacaccaaagctcccacgaatgtcccatctgccttgcaaatgccagtttt
cctgtgctcaccgattgcgggcacattttctgctgtgaatgtatcattcagtactggcaa
cagagcaaggcaattgtgacgccgtgcgattgcgcaatgtgcagaagcactttctacatg
cttctcccagtccactggccaacaatggggacctccgaagaaactgatgatcacattcag
gaaaataatattcggatcgatgactataacaggaggttttcgattaatcgaccggtactc
gactacatccgtgaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCGCCAGCCGCATGGATGAAAACG 377 285 235 Antisense
AGTGAAGCTCTACACCAAAGCTCCC 134 61 295 Antisense
CCCATCTGCCTTGCAAATGCCAGTT 348 259 328 Antisense
TTGCAAATGCCAGTTTTCCTGTGCT 619 703 338 Antisense
CTGTGCTCACCGATTGCGGGCACAT 457 239 356 Antisense
TTGCGGGCACATTTTCTGCTGTGAA 429 703 369 Antisense
GCAAGGCAATTGTGACGCCGTGCGA 589 321 419 Antisense
GACGCCGTGCGATTGCGCAATGTGC 406 381 432 Antisense
GAAGCACTTTCTACATGCTTCTCCC 420 341 458 Antisense
CACTGGCCAACAATGGGGACCTCCG 325 197 487 Antisense
CCGGTACTCGACTACATCCGTGACA 191 263 586 Antisense
Sequence Source Affymetrix Proprietary Database