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[192657_at] Zinc finger, C3HC4 type (RING finger)

Description M142.6 /REP_DB=WormBase Gene ID /WP=CE16279 /TR=O45962 /GB=CAB16481.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Zinc finger, C3HC4 type (RING finger)
Cluster 6grp_total > 92      4grp_total > 56      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 9
1 2 3 4 range
A 7
(3)
A 		5.9
(-0.9)
A 		5.3
(-3)
A 		6.9
(2.6)
A 		2
B 4.2
(-3)
A 		5.9
(-1.8)
A 		12.9
(3)
A 		6.2
(-1.6)
A 		9
C 9.3
(1.5)
A 		6
(-1.7)
A 		10.9
(3)
A 		4.6
(-3)
A 		6
avr 6.8
(-1.6) 		5.9
(-3) 		9.7
(3) 		5.9
(-3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5
1 2 3 4 5 6 range
A 6.5
(1.1)
A 		8
(3)
A 		3.3
(-3)
A 		3.7
(-2.5)
A 		6.6
(1.2)
A 		4.4
(-1.6)
A 		5
B 5.1
(-0.9)
A 		4.6
(-1.9)
A 		7.2
(3)
A 		6.3
(1.3)
A 		6.3
(1.3)
A 		4
(-3)
A 		3
C 6.1
(0.5)
A 		7.2
(2)
A 		5.4
(-0.4)
A 		5.2
(-0.7)
A 		7.9
(3)
A 		3.5
(-3)
A 		4
avr 5.9
(0.9) 		6.6
(2.4) 		5.3
(-0.3) 		5.1
(-0.7) 		6.9
(3) 		4
(-3) 		3
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3
1 2 3 4 range
A 2.6
(3)
A 		1.3
(-1.9)
A 		1.4
(-1.5)
A 		1
(-3)
A 		2
B 1.3
(-3)
A 		1.5
(-2.3)
A 		3
(3)
A 		1.3
(-3)
A 		2
C 3.1
(1.6)
A 		1.7
(-1.2)
A 		3.8
(3)
A 		0.8
(-3)
A 		3
avr 2.3
(1.6) 		1.5
(-1.2) 		2.7
(3) 		1
(-3) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2
1 2 3 4 5 6 range
A 1.2
(-1.6)
A 		2.9
(3)
A 		0.7
(-3)
A 		0.9
(-2.5)
A 		2
(0.5)
A 		1.1
(-1.9)
A 		2
B 1.8
(-1.4)
A 		1.5
(-3)
A 		1.8
(-1.4)
A 		1.7
(-1.9)
A 		2.6
(3)
A 		1.5
(-3)
A 		1
C 2.3
(1.9)
A 		2.2
(1.5)
A 		1.4
(-1.5)
A 		1
(-3)
A 		2.6
(3)
A 		1.2
(-2.3)
A 		2
avr 1.8
(0) 		2.2
(2) 		1.3
(-2.5) 		1.2
(-3) 		2.4
(3) 		1.3
(-2.5) 		1
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192657_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7224
Sequence Type Exemplar sequence
Representative Public ID M142.6 NCBI
Target Description M142.6 /REP_DB=WormBase Gene ID /WP=CE16279 /TR=O45962 /GB=CAB16481.1 /SUBMIT=HINXTON /CHR=3 /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_067002(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067002 NCBI Caenorhabditis elegans M142.6 (M142.6) mRNA, complete cds. 11/11 None
SNAP00000019733 ENSEMBL cdna:SNAP chromosome:CEL140:III:10939059:10946376:1 11/11 None
GENEFINDER00000019734 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:10939116:10946376:1 11/11 None
M142.6 ENSEMBL cdna:known chromosome:CEL140:III:10936123:10946376:1 gene:M142.6 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:10936870-10946372(+) 95.01 100.0
Public Domain and Genome References
Gene Title Zinc finger, C3HC4 type (RING finger)
Ensembl M142.6
Entrez Gene 176525 Entrez gene
SwissProt O45962 EMBL-EBI
WormBase CE34061 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA97810 Hypothetical protein M142.6 [Caenorhabditis elegans] emb|CAB16481.2| Hypothetical protein M142.6 [Caenorhabditis elegans] ref|NP_499403.2| M142.6 [Caenorhabditis elegans] 0.0
blast CAE71369 Hypothetical protein CBG18273 [Caenorhabditis briggsae] 0.0
blast CAE71369 Hypothetical protein CBG18273 [Caenorhabditis briggsae] 1.0E-128
blast NP_001020123 roquin [Mus musculus] gb|AAY16368.1| roquin [Mus musculus] sp|Q4VGL6|RC3H1_MOUSE Roquin (RING finger and C3H zinc finger protein 1) (Sanroque protein) 5.0E-86
blast CAE71369 Hypothetical protein CBG18273 [Caenorhabditis briggsae] 1.0E-43
Sequence
Target Sequence 
>C. ELEGANS:192657_AT
tcggcatccgctaccgtacaagcggaatgtgaaaatcgaaaaattttagattttccctta
aaatatcgaaaaatgacactaatgtttgaaaaagtttccacctgttttcatgtgacattg
ttaaaagattatatggtgttttatgtgttgaacactttaaatttcgccagtcgttggccg
cgccgtaggcgcgctgcaaccatcccccaaccggtcattccaatggtacaagttccagta
caagtaccaattgttccagctgaaaacttcaatccaaatgtcccaccaccaccaccgcca
ccacagggacaaccgatgcttgtcgacagtgccatcggactgctgacaccgattcgaccg
attctggttgcacatccacagaatgttgtttcgaattcacttgataaaattgttgatgtt
aaggagagaattagtgaggcacaaggaaatgcgtcggaagccgaaaatgcacatctccga
atggagctccgaatggctgaaagtcaaatggctcatttggatccatatacaaagaataat
tgcctgctccgtgctcttcagcaggtcgatat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCGGCATCCGCTACCGTACAAGCGG 377 605 2545 Antisense
CCCAACCGGTCATTCCAATGGTACA 679 257 2750 Antisense
CCACCACAGGGACAACCGATGCTTG 256 271 2842 Antisense
CAACCGATGCTTGTCGACAGTGCCA 411 187 2854 Antisense
TCGACAGTGCCATCGGACTGCTGAC 430 601 2867 Antisense
GACACCGATTCGACCGATTCTGGTT 533 367 2889 Antisense
CCGATTCTGGTTGCACATCCACAGA 150 265 2902 Antisense
GAAGCCGAAAATGCACATCTCCGAA 84 345 3001 Antisense
CTCCGAATGGAGCTCCGAATGGCTG 696 231 3019 Antisense
AAAGAATAATTGCCTGCTCCGTGCT 574 123 3075 Antisense
TCCGTGCTCTTCAGCAGGTCGATAT 320 595 3092 Antisense
Sequence Source Affymetrix Proprietary Database