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[174523_s_at] protease

Description CEK002F3R_rc /REP_DB=TREMBL Accession /GB=D27705 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk2f3 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 64      6grp_high1_10_10 > 46      4grp_highest_8_8 > 16      4grp_high_8_8 > 60      6grp_highest_nonorm > 74      6grp_total > 47      4grp_total > 59      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 688
1 2 3 4 range
A 714.4
(1.3)
P 		891.6
(2.8)
P 		911.5
(3)
P 		224
(-3)
P 		688
B 531.8
(1.7)
P 		603.5
(3)
P 		600.4
(2.9)
P 		276.5
(-3)
P 		327
C 574.8
(0.7)
P 		700.4
(2.1)
P 		785
(3)
P 		237.2
(-3)
P 		548
avr 607
(1.2) 		731.8
(2.6) 		765.6
(3) 		245.9
(-3) 		520

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 334
1 2 3 4 5 6 range
A 692
(3)
P 		688.7
(2.9)
P 		459.8
(-3)
P 		589.3
(0.3)
P 		593.6
(0.5)
P 		661.2
(2.2)
P 		232
B 736.3
(1.6)
P 		721.3
(1.3)
P 		590.2
(-1.9)
P 		629.2
(-1)
P 		544.9
(-3)
P 		793.8
(3)
P 		249
C 601.9
(-0.6)
P 		784.4
(3)
P 		618.3
(-0.3)
P 		622.9
(-0.2)
P 		480.1
(-3)
P 		761.5
(2.5)
P 		304
avr 676.7
(1.1) 		731.5
(2.8) 		556.1
(-2.5) 		613.8
(-0.8) 		539.5
(-3) 		738.8
(3) 		199
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 241
1 2 3 4 range
A 260.1
(3)
P 		193.6
(1.2)
P 		238.3
(2.4)
P 		32.8
(-3)
P 		227
B 169.6
(3)
P 		149
(1.9)
P 		139.1
(1.3)
P 		58.9
(-3)
P 		111
C 190.3
(0.9)
P 		201.4
(1.1)
P 		273.6
(3)
P 		40
(-3)
P 		234
avr 206.7
(2.6) 		181.3
(1.8) 		217
(3) 		43.9
(-3) 		173

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 196
1 2 3 4 5 6 range
A 127.6
(-1.9)
P 		244.9
(3)
P 		100.1
(-3)
P 		149.5
(-1)
P 		179.1
(0.3)
P 		161
(-0.5)
P 		145
B 256.2
(1.4)
P 		240.1
(0.8)
P 		143.3
(-3)
P 		166.7
(-2.1)
P 		221.4
(0.1)
P 		296
(3)
P 		153
C 223.1
(1.5)
P 		239.3
(2.3)
P 		157.4
(-1.5)
P 		125.3
(-3)
P 		155.3
(-1.6)
P 		254.9
(3)
P 		130
avr 202.3
(0.8) 		241.4
(3) 		133.6
(-3) 		147.2
(-2.2) 		185.3
(-0.1) 		237.3
(2.8) 		108
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174523_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20301
Sequence Type Exemplar sequence
Representative Public ID CEK002F3R NCBI
Target Description CEK002F3R_rc /REP_DB=TREMBL Accession /GB=D27705 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk2f3 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_060395(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060395 NCBI Caenorhabditis elegans C34B2.6 (protease) mRNA, complete cds. 11/11 A 
SNAP00000007245 ENSEMBL cdna:SNAP chromosome:CEL140:I:10685184:10690493:-1 11/11 None
GENEFINDER00000007259 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:10685184:10690493:-1 11/11 None
C34B2.6 ENSEMBL cdna:known chromosome:CEL140:I:10685052:10690495:-1 gene:C34B2.6 11/11 A 
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:10684993-10685559(-) 100.0 100.0
Public Domain and Genome References
Gene Title protease
Ensembl C34B2.6
Entrez Gene 172966 Entrez gene
SwissProt O44952 EMBL-EBI
WormBase CE16894 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:246850_AT Lon protease homolog 2, mitochondrial at
CANINE_2:CFA.17894.1.S1_S_AT similar to Lon protease homolog, mitochondrial precursor (Lon protease-like protein) (LONP) (LONHs) cfa
CANINE_2:CFA.21615.1.S1_S_AT similar to Lon protease homolog, mitochondrial precursor (Lon protease-like protein) (LONP) (LONHs) cfa
DROSOPHILA_2:1628352_A_AT dm
DROSGENOME1:154535_AT dm
HG-U133A:209017_S_AT protease, serine, 15 hs
HG-U133_PLUS_2:209017_S_AT protease, serine, 15 hs
HG-U133A_2:209017_S_AT protease, serine, 15 hs
U133_X3P:G639426_3P_A_AT protease, serine, 15 hs
HG-U95D:74548_AT protease, serine, 15 hs
HG-U95E:89584_AT protease, serine, 15 hs
MU11KSUBB:MSA.16182.0_S_AT protease, serine, 15 mm
MU11KSUBB:MSA.28021.0_S_AT protease, serine, 15 mm
MU11KSUBB:MSA.26025.0_S_AT protease, serine, 15 mm
MU11KSUBB:MSA.41934.0_F_AT protease, serine, 15 mm
MU11KSUBB:MSA.6254.0_S_AT protease, serine, 15 mm
MG-U74AV2:160328_AT protease, serine, 15 mm
MOE430A:1428365_A_AT protease, serine, 15 mm
MOUSE430A_2:1428365_A_AT protease, serine, 15 mm
MOUSE430_2:1428365_A_AT protease, serine, 15 mm
MG-U74AV2:92684_AT protease, serine, 15 mm
MU11KSUBB:MSA.25096.0_S_AT Protease, serine, 15, mRNA (cDNA clone IMAGE:6817513) mm
MU11KSUBB:MSA.31440.0_S_AT Protease, serine, 15, mRNA (cDNA clone IMAGE:6817513) mm
MU19KSUBB:TC31031_AT Protease, serine, 15, mRNA (cDNA clone IMAGE:6817513) mm
MU19KSUBC:TC39326_AT Protease, serine, 15, mRNA (cDNA clone IMAGE:6817513) mm
MU19KSUBC:TC39710_AT Protease, serine, 15, mRNA (cDNA clone IMAGE:6817513) mm
RG-U34B:RC_AA997362_AT protease, serine, 15 rn
RAE230A:1398247_AT protease, serine, 15 rn
RAT230_2:1398247_AT protease, serine, 15 rn
RAE230A:1375802_AT Protease, serine, 15 rn
RAT230_2:1375802_AT Protease, serine, 15 rn
RG-U34B:RC_AI011610_AT Protease, serine, 15 rn
YEAST_2:1776390_AT Mitochondrial ATP-dependent protease involved in intramitochondrial proteolysis; involved in degradation of misfolded proteins in mitochondria; required for bigenesis and maintenance of mitochondria Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6508 proteolysis inferred from electronic annotation QuickGO AmiGO
6510 ATP-dependent proteolysis inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
166 nucleotide binding inferred from electronic annotation QuickGO AmiGO
4176 ATP-dependent peptidase activity inferred from electronic annotation QuickGO AmiGO
4252 serine-type endopeptidase activity inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB97538 Hypothetical protein C34B2.6 [Caenorhabditis elegans] ref|NP_492796.1| C34B2.6 [Caenorhabditis elegans] sp|O44952|LONM_CAEEL Lon protease homolog, mitochondrial precursor 0.0
blast CAE67340 Hypothetical protein CBG12802 [Caenorhabditis briggsae] 0.0
blast NP_596895 protease, serine, 15 [Rattus norvegicus] dbj|BAB62423.1| Lon [Rattus norvegicus] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR008269 EMBL-EBI Peptidase S16, lon C-terminal 4.2E-95
Pfam IPR003959 EMBL-EBI AAA ATPase, central region 4.4E-54
Pfam IPR003111 EMBL-EBI Peptidase S16, lon N-terminal 1.6E-122
Sequence
Target Sequence 
>C. ELEGANS:174523_S_AT
caccaaaagacggaccatctgcaggagtaactcttgtctcaagtcttctttcactcgctt
tagaccgacctgttgtgcaggacatggcgatgactggtgaaatttcattaaccggaaaag
tgctgccagttggtggaattcgggaaaaagtgatcgcggctcgccgtgtcggagcaaaac
gagtcttccttccaaatgagaatcgtcgagactttgatgatttaccagaattcatgaaat
cagagttggatattcgattcgtttcgcattatgatgagctctacgagcatctcttccaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CACCAAAAGACGGACCATCTGCAGG 172 201 38 Antisense
GTAACTCTTGTCTCAAGTCTTCTTT 614 461 64 Antisense
TCGCTTTAGACCGACCTGTTGTGCA 210 601 92 Antisense
GTGCAGGACATGGCGATGACTGGTG 414 479 112 Antisense
AGTGCTGCCAGTTGGTGGAATTCGG 384 59 156 Antisense
TCGGGAAAAAGTGATCGCGGCTCGC 286 605 177 Antisense
GGCTCGCCGTGTCGGAGCAAAACGA 22 539 195 Antisense
AGCAAAACGAGTCTTCCTTCCAAAT 532 69 210 Antisense
GTTGGATATTCGATTCGTTTCGCAT 220 437 282 Antisense
CGTTTCGCATTATGATGAGCTCTAC 292 247 297 Antisense
TGAGCTCTACGAGCATCTCTTCCAA 637 569 312 Antisense
Sequence Source Affymetrix Proprietary Database