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[189021_at] P97 protein

Description C41C4.8 /REP_DB=WormBase Gene ID /WP=CE05402 /TR=SW:P54812 /GB=CAA88314.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=P97 protein
Cluster 6grp_highest_10_10 > 25      6grp_high1_10_10 > 40      4grp_highest_8_8 > 02      4grp_high_8_8 > 46      6grp_highest_nonorm > 56      6grp_total > 52      4grp_total > 49      6grp_highest_sub > 03      6grp_cgc > 92      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2482
1 2 3 4 range
A 1487.8
(-3)
P 		3817.7
(2.9)
P 		3846.3
(3)
P 		1886.6
(-2)
P 		2359
B 1509.5
(-3)
P 		2777.6
(0.9)
P 		3441.1
(3)
P 		1632.5
(-2.6)
P 		1932
C 1364.3
(-3)
P 		3302.2
(2.3)
P 		3543.6
(3)
P 		1494.6
(-2.6)
P 		2179
avr 1453.9
(-3) 		3299.2
(2.1) 		3610.3
(3) 		1671.2
(-2.4) 		2156

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 714
1 2 3 4 5 6 range
A 2201.8
(3)
P 		2143.4
(1.8)
P 		2001.3
(-1.1)
P 		2147.4
(1.9)
P 		1908.8
(-3)
P 		2045
(-0.2)
P 		293
B 1958.1
(-2.8)
P 		2054.7
(-1.7)
P 		2447.9
(3)
P 		2228.1
(0.4)
P 		1942.2
(-3)
P 		2138.5
(-0.7)
P 		506
C 2131.1
(-1.6)
P 		2112.9
(-1.8)
P 		2622.4
(3)
P 		2060.4
(-2.3)
P 		2240
(-0.6)
P 		1981
(-3)
P 		641
avr 2097
(-1.8) 		2103.7
(-1.7) 		2357.2
(3) 		2145.3
(-0.9) 		2030.3
(-3) 		2054.8
(-2.6) 		327
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 983
1 2 3 4 range
A 541.7
(-0.8)
P 		828.7
(1.5)
P 		1005.5
(3)
P 		276.2
(-3)
P 		729
B 481.4
(-1.2)
P 		686
(1.5)
P 		797.4
(3)
P 		347.9
(-3)
P 		450
C 451.6
(-1.8)
P 		949.4
(1.3)
P 		1235
(3)
P 		252
(-3)
P 		983
avr 491.6
(-1.3) 		821.4
(1.4) 		1012.6
(3) 		292
(-3) 		721

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 392
1 2 3 4 5 6 range
A 405.9
(-3)
P 		762.3
(3)
P 		435.8
(-2.5)
P 		544.6
(-0.7)
P 		576
(-0.1)
P 		497.9
(-1.5)
P 		356
B 681.3
(-0.4)
P 		683.9
(-0.3)
P 		594.4
(-2.9)
P 		590.1
(-3)
P 		789.1
(2.8)
P 		797.4
(3)
P 		207
C 789.9
(3)
P 		644.7
(0.7)
P 		667.5
(1)
P 		414.3
(-3)
P 		724.8
(2)
P 		663.2
(1)
P 		376
avr 625.7
(0.6) 		697
(3) 		565.9
(-1.4) 		516.3
(-3) 		696.6
(3) 		652.8
(1.5) 		181
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189021_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2736
Sequence Type Exemplar sequence
Representative Public ID C41C4.8 NCBI
Target Description C41C4.8 /REP_DB=WormBase Gene ID /WP=CE05402 /TR=SW:P54812 /GB=CAA88314.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=P97 protein
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_063304(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063304 NCBI Caenorhabditis elegans Cell Division Cycle related family member (cdc-48.2) (cdc-48.2) mRNA, complete cds. 11/11 None
SNAP00000014810 ENSEMBL cdna:SNAP chromosome:CEL140:II:8139076:8141069:1 11/11 None
GENEFINDER00000014826 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:8139195:8141069:1 11/11 None
C41C4.8.3 ENSEMBL cdna:known chromosome:CEL140:II:8137801:8141179:1 gene:C41C4.8 11/11 None
C41C4.8.2 ENSEMBL cdna:known chromosome:CEL140:II:8138315:8141186:1 gene:C41C4.8 11/11 None
C41C4.8.1 ENSEMBL cdna:known chromosome:CEL140:II:8138417:8141197:1 gene:C41C4.8 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:8138428-8141066(+) 100.0 100.0
Public Domain and Genome References
Gene Title P97 protein
Gene Symbol cdc-48.2
Ensembl C41C4.8
Entrez Gene 174309 Entrez gene
SwissProt P54812 EMBL-EBI
WormBase CE05402 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:251975_AT cell division cycle protein 48, putative / CDC48, putative at
CANINE:1602491_AT similar to Transitional endoplasmic reticulum ATPase (TER ATPase) (15S Mg(2+)-ATPase p97 subunit) (Valosin-containing protein) (VCP) cfa
CANINE:1591742_AT similar to Transitional endoplasmic reticulum ATPase (TER ATPase) (15S Mg(2+)-ATPase p97 subunit) (Valosin-containing protein) (VCP) cfa
CANINE:1584456_AT similar to Transitional endoplasmic reticulum ATPase (TER ATPase) (15S Mg(2+)-ATPase p97 subunit) (Valosin-containing protein) (VCP) cfa
CANINE_2:CFA.11634.1.S1_AT similar to Transitional endoplasmic reticulum ATPase (TER ATPase) (15S Mg(2+)-ATPase p97 subunit) (Valosin-containing protein) (VCP) cfa
CANINE_2:CFAAFFX.3906.1.S1_S_AT similar to Transitional endoplasmic reticulum ATPase (TER ATPase) (15S Mg(2+)-ATPase p97 subunit) (Valosin-containing protein) (VCP) cfa
DROSOPHILA_2:1628008_A_AT Saccharomyces cerevisiae UAS construct a of McKearin dm
DROSGENOME1:153155_AT Saccharomyces cerevisiae UAS construct a of McKearin dm
HG-U133_PLUS_2:208649_S_AT valosin-containing protein hs
HG-U133A:208649_S_AT valosin-containing protein hs
HG-FOCUS:208649_S_AT valosin-containing protein hs
HG-U133A_2:208649_S_AT valosin-containing protein hs
HG-U133_PLUS_2:208648_AT valosin-containing protein hs
HG-U133A_2:208648_AT valosin-containing protein hs
HG-U133A:208648_AT valosin-containing protein hs
HU35KSUBA:AA236441_AT valosin-containing protein hs
HU35KSUBB:RC_AA113353_AT valosin-containing protein hs
HU35KSUBC:RC_F13645_S_AT valosin-containing protein hs
HU35KSUBD:RC_T15455_AT valosin-containing protein hs
HU35KSUBD:RC_R43263_AT valosin-containing protein hs
U133_X3P:G5410289_3P_A_AT valosin-containing protein hs
U133_X3P:HS.106357.0.S2_3P_AT valosin-containing protein hs
HG-U95AV2:33818_AT valosin-containing protein hs
HG-U95B:44058_AT valosin-containing protein hs
HG-U95B:56348_AT valosin-containing protein hs
HU35KSUBB:RC_AA223730_AT Valosin-containing protein hs
MG-U74AV2:100710_AT valosin containing protein mm
MOE430A:1423030_AT valosin containing protein mm
MOUSE430_2:1423030_AT valosin containing protein mm
MOUSE430A_2:1423030_AT valosin containing protein mm
MU11KSUBB:MSA.42782.0_S_AT valosin containing protein mm
MU11KSUBB:MSA.14842.0_S_AT valosin containing protein mm
MU11KSUBB:MSA.30929.0_F_AT valosin containing protein mm
MU11KSUBB:Z14044_F_AT valosin containing protein mm
MU11KSUBB:MSA.2527.0_F_AT valosin containing protein mm
MG-U74AV2:161550_R_AT valosin containing protein mm
MU11KSUBA:AA612255_AT Valosin containing protein (Vcp), mRNA mm
MU19KSUBA:TC18710_F_AT Valosin containing protein (Vcp), mRNA mm
RG-U34A:RC_AI044341_S_AT valosin-containing protein rn
RG-U34A:U11760_AT valosin-containing protein rn
RAE230A:1367455_AT valosin-containing protein rn
RAE230B:1367455_AT valosin-containing protein rn
RAT230_2:1367455_AT valosin-containing protein rn
YEAST_2:1777140_AT ATPase in ER, nuclear membrane and cytosol with homology to mammalian p97; in a complex with Npl4p and Ufd1p participates in retrotranslocation of ubiquitinated proteins from the ER into the cytosol for degradation by the proteasome Sc
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
166 nucleotide binding inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
16787 hydrolase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA88314 Hypothetical protein C41C4.8 [Caenorhabditis elegans] emb|CAA88105.1| Hypothetical protein C41C4.8 [Caenorhabditis elegans] ref|NP_495705.1| Cell Division Cycle related family member (cdc-48.2) [Caenorhabditis elegans] sp|P54812|TERA2_CAEEL Transitional endoplasmic reticulum ATPase homolog 2 (p97/CDC48 homolog 2) 0.0
blast CAE57735 Hypothetical protein CBG00746 [Caenorhabditis briggsae] 0.0
blast CAA90050 Hypothetical protein C06A1.1 [Caenorhabditis elegans] ref|NP_496273.1| Cell Division Cycle related family member (cdc-48.1) [Caenorhabditis elegans] sp|P54811|TERA1_CAEEL Transitional endoplasmic reticulum ATPase homolog 1 (p97/CDC48 homolog 1) 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 6.5E-93
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 5.6E-97
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 6.5E-93
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 5.6E-97
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 6.5E-93
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 5.6E-97
Pfam IPR003338 EMBL-EBI AAA ATPase VAT, N-terminal 6.7E-27
Sequence
Target Sequence 
>C. ELEGANS:189021_AT
gccgatcgtgttatcaaccaggttctcactgaaatggatggtatgaatgccaagaaaaac
gtgttcattattggagctaccaatcgtcctgatatcattgatccagctgttcttcgtcca
ggacgtctcgatcagttgatctacattcctcttcctgacgaagcatctagacttcaaatt
ttcaaggcctcactccgcaaaacgcccctttccgccgatctcgatttgaacttccttgcc
aagaacaccgtcggtttttcgggagccgacttaaccgaaatttgccaaagagcatgcaag
cttgccattcgtgaatcaattgaacgggaaattcgtcaggaaaaggagcgtcaggacaga
agtgctcgtggagaagaacttatggaggatgaactggctgacccagttccagaaataact
agagcacacttcgaggaggcaatgaagttcgctagacgttccgtgactgataacgatatc
agaaaatacgagatgttcgcccagactcttcaacaatctcgtggatttggaaacaacttc
aagttcccaggagaagctccttctgctggacaacctgttgga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCGATCGTGTTATCAACCAGGTTC 275 285 1816 Antisense
GGAGCTACCAATCGTCCTGATATCA 439 521 1888 Antisense
TCCAGGACGTCTCGATCAGTTGATC 548 589 1932 Antisense
GATCAGTTGATCTACATTCCTCTTC 248 419 1945 Antisense
ATTCCTCTTCCTGACGAAGCATCTA 382 7 1960 Antisense
TTCAAATTTTCAAGGCCTCACTCCG 87 687 1988 Antisense
CCGATCTCGATTTGAACTTCCTTGC 337 263 2030 Antisense
GAGCCGACTTAACCGAAATTTGCCA 116 385 2078 Antisense
GAGCATGCAAGCTTGCCATTCGTGA 220 389 2105 Antisense
GCGTCAGGACAGAAGTGCTCGTGGA 566 291 2163 Antisense
TCCTTCTGCTGGACAACCTGTTGGA 29 593 2373 Antisense
Sequence Source Affymetrix Proprietary Database