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[176964_at] Signal peptidase

Description K12H4.4 /REP_DB=WormBase Gene ID /WP=CE00269 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=Signal peptidase
Cluster 6grp_highest_10_10 > 06      6grp_high1_10_10 > 60      4grp_highest_8_8 > 09      4grp_high_8_8 > 53      6grp_highest_nonorm > 57      6grp_total > 60      4grp_total > 58      6grp_highest_sub > 04      6grp_high1_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1177
1 2 3 4 range
A 2403.4
(-1.9)
P 		3310.3
(2.9)
P 		3332.2
(3)
P 		2194.3
(-3)
P 		1138
B 2546.6
(-1)
P 		3282.4
(3)
P 		3199.7
(2.6)
P 		2166.9
(-3)
P 		1116
C 2615.1
(-0.1)
P 		3102.2
(3)
P 		2957.2
(2.1)
P 		2154.8
(-3)
P 		947
avr 2521.7
(-1) 		3231.6
(3) 		3163
(2.6) 		2172
(-3) 		1060

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1115
1 2 3 4 5 6 range
A 2733.7
(0.5)
P 		2533
(-0.7)
P 		2861.4
(1.2)
P 		3168
(3)
P 		2323.5
(-1.9)
P 		2141.9
(-3)
P 		1026
B 2349.7
(-1.1)
P 		2247
(-1.8)
P 		2200.6
(-2.1)
P 		3010.9
(3)
P 		2247.7
(-1.8)
P 		2052.6
(-3)
P 		958
C 2442.3
(-0.3)
P 		2104.5
(-2.9)
P 		2878.1
(3)
P 		2776.7
(2.2)
P 		2218.4
(-2)
P 		2084.7
(-3)
P 		793
avr 2508.6
(-0.2) 		2294.8
(-1.6) 		2646.7
(0.7) 		2985.2
(3) 		2263.2
(-1.9) 		2093.1
(-3) 		892
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 710
1 2 3 4 range
A 875.1
(3)
P 		718.6
(1.3)
P 		871.1
(3)
P 		321.2
(-3)
P 		554
B 812.1
(3)
P 		810.7
(3)
P 		741.4
(1.8)
P 		461.8
(-3)
P 		350
C 865.7
(1.5)
P 		891.9
(1.8)
P 		1030.7
(3)
P 		363.3
(-3)
P 		667
avr 851
(2.6) 		807.1
(2.1) 		881.1
(3) 		382.1
(-3) 		499

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 409
1 2 3 4 5 6 range
A 503.9
(-3)
P 		900.9
(3)
P 		623.2
(-1.2)
P 		803.5
(1.5)
P 		701.1
(-0)
P 		521.5
(-2.7)
P 		397
B 817.6
(1.5)
P 		747.9
(0.4)
P 		534.4
(-3)
P 		797.5
(1.2)
P 		913.2
(3)
P 		765.4
(0.7)
P 		379
C 905.3
(3)
P 		642.1
(-1.6)
P 		732.5
(0)
P 		558.4
(-3)
P 		717.8
(-0.2)
P 		697.9
(-0.6)
P 		347
avr 742.3
(1.6) 		763.6
(2.4) 		630
(-3) 		719.8
(0.7) 		777.4
(3) 		661.6
(-1.7) 		147
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176964_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7729
Sequence Type Exemplar sequence
Representative Public ID K12H4.4 NCBI
Target Description K12H4.4 /REP_DB=WormBase Gene ID /WP=CE00269 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=Signal peptidase
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_066354(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066354 NCBI Caenorhabditis elegans K12H4.4 (K12H4.4) mRNA, complete cds. 11/11 None
SNAP00000000452 ENSEMBL cdna:SNAP chromosome:CEL140:III:8044957:8045706:1 11/11 None
GENEFINDER00000000469 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:8044957:8045706:1 11/11 None
K12H4.4.1 ENSEMBL cdna:known chromosome:CEL140:III:8044930:8045855:1 gene:K12H4.4 11/11 None
K12H4.4.2 ENSEMBL cdna:known chromosome:CEL140:III:8044939:8045855:1 gene:K12H4.4 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:8044954-8045704(+) 100.0 100.0
Public Domain and Genome References
Gene Title Signal peptidase
Ensembl K12H4.4
Entrez Gene 176133 Entrez gene
SwissProt P34525 EMBL-EBI
WormBase CE00269 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:259307_AT signal peptidase subunit family protein at
CANINE:1582728_AT signal peptidase complex subunit 3 homolog (S. cerevisiae) cfa
CANINE_2:CFA.3875.1.A1_AT signal peptidase complex subunit 3 homolog (S. cerevisiae) cfa
DROSOPHILA_2:1641646_AT dm
DROSGENOME1:150496_AT dm
CHICKEN:GGA.3294.1.S1_AT signal peptidase complex subunit 3 homolog (S. cerevisiae) gga
HG-U133B:222753_S_AT signal peptidase complex subunit 3 homolog (S. cerevisiae) hs
HG-U133_PLUS_2:222753_S_AT signal peptidase complex subunit 3 homolog (S. cerevisiae) hs
HG-U133_PLUS_2:218817_AT signal peptidase complex subunit 3 homolog (S. cerevisiae) hs
HG-U133A:218817_AT signal peptidase complex subunit 3 homolog (S. cerevisiae) hs
HG-U133A_2:218817_AT signal peptidase complex subunit 3 homolog (S. cerevisiae) hs
HU35KSUBC:RC_H96556_AT signal peptidase complex subunit 3 homolog (S. cerevisiae) hs
U133_X3P:G12052843_3P_A_AT signal peptidase complex subunit 3 homolog (S. cerevisiae) hs
U133_X3P:G11345461_3P_AT signal peptidase complex subunit 3 homolog (S. cerevisiae) hs
HG-U95B:52044_AT signal peptidase complex subunit 3 homolog (S. cerevisiae) hs
U133_X3P:HS2.332749.1.S1_3P_AT Signal peptidase complex subunit 3 homolog (S. cerevisiae) hs
HG-U133_PLUS_2:1557353_AT Signal peptidase complex subunit 3 homolog (S. cerevisiae) hs
HG-U95C:48819_AT Signal peptidase complex subunit 3 homolog (S. cerevisiae) hs
HG-U95C:60773_AT Signal peptidase complex subunit 3 homolog (S. cerevisiae) hs
HG-U95E:77452_AT Signal peptidase complex subunit 3 homolog (S. cerevisiae) hs
HU35KSUBC:RC_N36421_AT Signal peptidase complex subunit 3 homolog (S. cerevisiae) hs
HU35KSUBD:RC_N62464_AT Signal peptidase complex subunit 3 homolog (S. cerevisiae) hs
MOUSE430A_2:1451679_AT RIKEN cDNA 6530401D17 gene mm
MOE430A:1451679_AT RIKEN cDNA 6530401D17 gene mm
MOUSE430_2:1451679_AT RIKEN cDNA 6530401D17 gene mm
MOUSE430A_2:1428333_AT RIKEN cDNA 6530401D17 gene mm
MOE430A:1428333_AT RIKEN cDNA 6530401D17 gene mm
MOUSE430_2:1428333_AT RIKEN cDNA 6530401D17 gene mm
MU11KSUBA:AA198370_S_AT RIKEN cDNA 6530401D17 gene mm
MG-U74AV2:95523_AT RIKEN cDNA 6530401D17 gene mm
MG-U74BV2:116945_AT RIKEN cDNA 6530401D17 gene mm
MU19KSUBC:TC37399_AT RIKEN cDNA 6530401D17 gene (6530401D17Rik), mRNA mm
MU19KSUBC:TC39754_AT RIKEN cDNA 6530401D17 gene (6530401D17Rik), mRNA mm
RG-U34C:RC_AI102732_AT similar to Microsomal signal peptidase 23 kDa subunit (SPase 22 kDa subunit) (SPC22/23) rn
RAE230A:1373333_AT similar to Microsomal signal peptidase 23 kDa subunit (SPase 22 kDa subunit) (SPC22/23) rn
RAT230_2:1373333_AT similar to Microsomal signal peptidase 23 kDa subunit (SPase 22 kDa subunit) (SPC22/23) rn
RAE230B:1392769_AT Similar to Microsomal signal peptidase 23 kDa subunit (SPase 22 kDa subunit) (SPC22/23) rn
RAT230_2:1392769_AT Similar to Microsomal signal peptidase 23 kDa subunit (SPase 22 kDa subunit) (SPC22/23) rn
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5783 endoplasmic reticulum inferred from electronic annotation QuickGO AmiGO
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
9003 signal peptidase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_498755 K12H4.4 [Caenorhabditis elegans] gb|AAA28096.1| Hypothetical protein K12H4.4 [Caenorhabditis elegans] sp|P34525|SPCS3_CAEEL Probable signal peptidase complex subunit 3 (Microsomal signal peptidase 22 kDa subunit) (SPase 22 kDa subunit) (SPC22) 2.0E-94
blast Q60MW2 Probable signal peptidase complex subunit 3 (Microsomal signal peptidase 22 kDa subunit) (SPase 22 kDa subunit) (SPC22) emb|CAE75064.1| Hypothetical protein CBG22979 [Caenorhabditis briggsae] 1.0E-80
Protein Domains
Database ID Description E-Value
Pfam IPR007653 EMBL-EBI Signal peptidase 22 kDa subunit 2.1E-110
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_498755.1 1 10-32
K12H4.4.1 1 10-32
K12H4.4.2 1 10-32
SNAP00000000452 1 10-32
GENEFINDER00000000469 1 10-32
Sequence
Target Sequence 
>C. ELEGANS:176964_AT
gcacaatcttctgtctcgtgctaacgcactcctagcgttcactctttgggtgatggccgc
agtcacagcagcttgtttcctgtcaacagttttcctcgactacactgttccaaccaagct
cactgtcaacgatgtcaaagtgagaaacgttgtcgactacgccacggatgagcaacaagc
cgatctcgccacactaaacttcaatctgaaagtcgatttttcaaagattttcaactggaa
cgtcaagcaattgtttgtttatttggttgcagaatataaatcgaaagtcaacgaggttaa
ccaagtggtgctatgggacagaattgtggaacgtgctgaccgtgtggttatggacgagat
cggtgtcaagtcaaagtattatttcctcgacgatggaaccaatttgcttaaccacaaaaa
tgtcacctttgttttgagatacaacgtgattccaaactctggctatcttcgtcttgttca
atcttccgatcaagttgttgttccgttcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCACAATCTTCTGTCTCGTGCTAAC 475 317 15 Antisense
TGCTAACGCACTCCTAGCGTTCACT 261 579 33 Antisense
CAGTCACAGCAGCTTGTTTCCTGTC 579 207 74 Antisense
TCCTGTCAACAGTTTTCCTCGACTA 214 593 92 Antisense
AACCAAGCTCACTGTCAACGATGTC 220 149 126 Antisense
GGATGAGCAACAAGCCGATCTCGCC 540 513 180 Antisense
GATCTCGCCACACTAAACTTCAATC 47 419 196 Antisense
GGAACGTGCTGACCGTGTGGTTATG 166 531 342 Antisense
GATTCCAAACTCTGGCTATCTTCGT 6 431 462 Antisense
ATCTTCGTCTTGTTCAATCTTCCGA 120 31 479 Antisense
TCCGATCAAGTTGTTGTTCCGTTCC 543 591 499 Antisense
Sequence Source Affymetrix Proprietary Database