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[172014_x_at] P97 protein

Description AV175969_rc /REP_DB=TREMBL Accession /GB=AV175969 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk499d12 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 73      6grp_high1_10_10 > 37      4grp_high_8_8 > 63      6grp_highest_nonorm > 85      6grp_total > 37      4grp_total > 56      6grp_highest_sub > Cu      6grp_cgc > 06      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1241
1 2 3 4 range
A 736.7
(-2)
P 		842.1
(-1.5)
P 		1771.8
(3)
P 		531
(-3)
M 		1241
B 685.4
(-3)
P 		1050.2
(0.1)
P 		1398.5
(3)
P 		850.9
(-1.6)
P 		713
C 646.9
(-3)
P 		948.1
(-0.1)
P 		1274.1
(3)
P 		761.4
(-1.9)
P 		627
avr 689.7
(-3) 		946.8
(-1.1) 		1481.5
(3) 		714.4
(-2.8) 		792

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 383
1 2 3 4 5 6 range
A 830.1
(2.2)
P 		806.3
(1.5)
P 		726.8
(-0.8)
P 		648.1
(-3)
P 		848.7
(2.7)
P 		858.5
(3)
P 		210
B 967.8
(3)
P 		840.4
(0.8)
P 		823.1
(0.6)
P 		719.2
(-1.2)
P 		613.2
(-3)
P 		815.2
(0.4)
P 		355
C 807.6
(2.4)
P 		737.5
(0.7)
P 		834
(3)
P 		585.1
(-3)
P 		714
(0.1)
P 		782.1
(1.7)
P 		249
avr 868.5
(3) 		794.7
(1) 		794.6
(1) 		650.8
(-3) 		725.3
(-0.9) 		818.6
(1.6) 		218
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 386
1 2 3 4 range
A 268.2
(-0)
P 		182.8
(-1.4)
P 		463.2
(3)
P 		77.7
(-3)
M 		386
B 218.6
(-1.4)
P 		259.4
(0.3)
P 		324.1
(3)
P 		181.3
(-3)
P 		143
C 214.2
(-1.4)
P 		272.6
(-0.3)
P 		444.1
(3)
P 		128.4
(-3)
P 		316
avr 233.7
(-0.8) 		238.3
(-0.7) 		410.5
(3) 		129.1
(-3) 		281

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 219
1 2 3 4 5 6 range
A 153
(-3)
P 		286.8
(3)
P 		158.3
(-2.8)
P 		164.4
(-2.5)
P 		256.1
(1.6)
P 		209
(-0.5)
P 		134
B 336.8
(3)
P 		279.7
(0.7)
P 		199.9
(-2.6)
P 		190.5
(-3)
P 		249.1
(-0.6)
P 		304
(1.7)
P 		146
C 299.4
(3)
P 		225
(0.5)
P 		212.3
(0.1)
P 		117.7
(-3)
P 		231
(0.7)
P 		261.8
(1.8)
P 		182
avr 263.1
(3) 		263.8
(3) 		190.2
(-1.2) 		157.5
(-3) 		245.4
(2) 		258.3
(2.7) 		106
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172014_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28026
Sequence Type Exemplar sequence
Representative Public ID AV175969 NCBI
Target Description AV175969_rc /REP_DB=TREMBL Accession /GB=AV175969 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk499d12 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_063304
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
C41C4.8.3 ENSEMBL cdna:known chromosome:CEL140:II:8137801:8141179:1 gene:C41C4.8 None
C41C4.8.2 ENSEMBL cdna:known chromosome:CEL140:II:8138315:8141186:1 gene:C41C4.8 A 
NM_063304 NCBI Caenorhabditis elegans Cell Division Cycle related family member (cdc-48.2) (cdc-48.2) mRNA, complete cds. A 
SNAP00000014810 ENSEMBL cdna:SNAP chromosome:CEL140:II:8139076:8141069:1 None
C41C4.8.1 ENSEMBL cdna:known chromosome:CEL140:II:8138417:8141197:1 gene:C41C4.8 A 
GENEFINDER00000014826 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:8139195:8141069:1 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:8140779-8141082(+) 93.77 93.77
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:172014_X_AT
ggagctttaggacagaagtgttagtggagaggaatttatggggggtggaatggctgaccc
agttccagaaataattagagcacacttcgaggaggcaatgaagttcgctagacgttccgt
gactgataacgatatcagaaaatacgagatgttcgcccagactcttcaacaatctcgtgg
atttggaaacaacttcaagttcccaggagtagctccttctgctccgaccacctgttggag
gaaacggtggctaccggtggaaatgacga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGCTTTAGGACAGAAGTGTTAGT 481 517 14 Antisense
GTGGAGAGGAATTTATGGGGGGTGG 267 489 37 Antisense
GGGGGTGGAATGGCTGACCCAGTTC 476 485 54 Antisense
GAATGGCTGACCCAGTTCCAGAAAT 101 333 61 Antisense
AGAGCACACTTCGAGGAGGCAATGA 587 53 90 Antisense
ATGAAGTTCGCTAGACGTTCCGTGA 86 43 111 Antisense
AAATACGAGATGTTCGCCCAGACTC 571 115 153 Antisense
CCCAGACTCTTCAACAATCTCGTGG 401 259 169 Antisense
AAGTTCCCAGGAGTAGCTCCTTCTG 603 155 210 Antisense
TGCTCCGACCACCTGTTGGAGGAAA 532 581 233 Antisense
CGGTGGCTACCGGTGGAAATGACGA 511 243 258 Antisense
Sequence Source Affymetrix Proprietary Database