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[173939_at] ER lumen protein retaining receptor

Description C49301 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F09B9.3 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C49301 /WB_GENE_ID=F09B9.3 /WP=CE23635 /CHR=X /FEA=Genomic Cluster /GEN=erd-2 /DEF=ER lumen protein retaining receptor; C.elegans cDNA clone yk482f12 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 16      6grp_high1_10_10 > 50      4grp_highest_8_8 > 11      4grp_high_8_8 > 55      6grp_highest_nonorm > 43      6grp_total > 51      4grp_total > 48      6grp_highest_sub > 03_04      6grp_cgc > 93      6grp_high1_sub > 03_04      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1132
1 2 3 4 range
A 734
(-3)
P 		1344.7
(3)
P 		1293.9
(2.5)
P 		831.2
(-2)
P 		611
B 758.5
(-3)
P 		1388.5
(0.5)
P 		1824.4
(3)
P 		928.7
(-2)
P 		1066
C 771.1
(-3)
P 		1202.5
(-0.6)
P 		1866.3
(3)
P 		775.5
(-3)
P 		1095
avr 754.5
(-3) 		1311.9
(0.7) 		1661.5
(3) 		845.1
(-2.4) 		907

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1174
1 2 3 4 5 6 range
A 1000.8
(-0.7)
P 		981.2
(-0.9)
P 		1557.5
(3)
P 		1353.6
(1.6)
P 		918.1
(-1.3)
P 		660.4
(-3)
P 		897
B 1327.6
(0.2)
P 		1029.2
(-1.4)
P 		1834.8
(3)
P 		1279.7
(-0.1)
P 		1135.7
(-0.9)
P 		746.5
(-3)
P 		1088
C 1086.2
(0.3)
P 		812
(-2.7)
P 		1090.1
(0.4)
P 		1329.9
(3)
P 		1179.3
(1.3)
P 		786.6
(-3)
P 		543
avr 1138.2
(0.2) 		940.8
(-1.4) 		1494.1
(3) 		1321.1
(1.6) 		1077.7
(-0.3) 		731.2
(-3) 		763
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 529
1 2 3 4 range
A 267.2
(1)
P 		291.9
(1.7)
P 		338.2
(3)
P 		121.7
(-3)
P 		217
B 241.9
(-1.8)
P 		342.9
(0.9)
P 		422.8
(3)
P 		197.9
(-3)
P 		225
C 255.3
(-1.6)
P 		345.7
(-0.5)
P 		650.5
(3)
P 		130.8
(-3)
P 		520
avr 254.8
(-1) 		326.8
(0.3) 		470.5
(3) 		150.1
(-3) 		320

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 301
1 2 3 4 5 6 range
A 184.5
(-2.2)
P 		348.9
(3)
P 		339.2
(2.7)
P 		343.3
(2.8)
P 		277.1
(0.7)
P 		160.8
(-3)
P 		188
B 461.9
(3)
P 		342.6
(-0.9)
P 		445.5
(2.5)
P 		338.9
(-1)
P 		461.4
(3)
P 		278.4
(-3)
P 		184
C 402.6
(3)
P 		247.8
(-3)
P 		277.5
(-1.8)
P 		267.4
(-2.2)
P 		381.6
(2.2)
P 		263.3
(-2.4)
P 		155
avr 349.7
(2) 		313.1
(0.4) 		354.1
(2.2) 		316.5
(0.5) 		373.4
(3) 		234.2
(-3) 		139
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173939_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.25848
Sequence Type Exemplar sequence
Representative Public ID C49301 NCBI
Target Description C49301 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F09B9.3 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C49301 /WB_GENE_ID=F09B9.3 /WP=CE23635 /CHR=X /FEA=Genomic Cluster /GEN=erd-2 /DEF=ER lumen protein retaining receptor; C.elegans cDNA clone yk482f12 : 5prime 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_077302(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077302 NCBI Caenorhabditis elegans ERD (yeast endoplasmic reticulum retention defective) related family member (erd-2) (erd-2) mRNA, complete cds. 11/11 A 
F09B9.3 ENSEMBL cdna:known chromosome:CEL140:X:10156799:10160367:-1 gene:F09B9.3 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000037098 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:10156809-10158671(-) 100.0 100.0
Public Domain and Genome References
Gene Title ER lumen protein retaining receptor
Gene Symbol erd-2
Ensembl F09B9.3
Entrez Gene 181228 Entrez gene
WormBase CE23635 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:260897_AT ER lumen protein retaining receptor (ERD2) / HDEL receptor at
ATGENOME1:18681_AT ER lumen protein retaining receptor (ERD2) / HDEL receptor at
CANINE_2:CFA.17420.1.S1_AT similar to KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 (predicted) cfa
CANINE_2:CFA.18703.1.S1_S_AT similar to KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 (predicted) cfa
CANINE_2:CFAAFFX.6938.1.S1_AT similar to KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 (predicted) cfa
DROSOPHILA_2:1641295_S_AT KDEL receptor dm
DROSGENOME1:153581_AT KDEL receptor dm
HG-U133_PLUS_2:200922_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 hs
HG-U133A:200922_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 hs
HG-FOCUS:200922_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 hs
HG-U133A_2:200922_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 hs
HG-U95AV2:37386_I_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 hs
HUGENEFL:X55885_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 hs
U133_X3P:G5803047_3P_X_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 hs
U133_X3P:G5803047_3P_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 hs
U133_X3P:HS2.78040.2.S1_3P_A_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 hs
HG-U133_PLUS_2:1555575_A_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 hs
HG-U95AV2:37387_R_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 hs
HG-U95D:75231_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 hs
MU11KSUBA:AA212981_S_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 mm
MU11KSUBB:MSA.8345.0_S_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 mm
MU11KSUBB:MSA.18482.0_S_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 mm
MG-U74AV2:95490_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 mm
MOE430A:1460211_A_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 mm
MOUSE430A_2:1460211_A_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 mm
MOUSE430_2:1460211_A_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 mm
MU19KSUBA:TC18417_S_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 (Kdelr1), mRNA mm
RG-U34C:RC_AI230458_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 (predicted) rn
RAE230A:1371514_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 (predicted) rn
RAT230_2:1371514_AT KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1 (predicted) rn
YEAST_2:1779835_AT Integral membrane protein that binds to the HDEL motif in proteins destined for retention in the endoplasmic reticulum; has a role in maintenance of normal levels of ER-resident proteins Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
15031 protein transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4872 receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA90056 Hypothetical protein F09B9.3 [Caenorhabditis elegans] ref|NP_509703.1| ERD (yeast endoplasmic reticulum retention defective) related family member (erd-2) [Caenorhabditis elegans] sp|P48583|ERD2_CAEEL ER lumen protein retaining receptor gb|AAC31954.1| ER lumen protein retaining receptor [Caenorhabditis elegans] 1.0E-118
blast C89623 protein F09B9.3 [imported] - Caenorhabditis elegans 1.0E-111
blast CAE70531 Hypothetical protein CBG17162 [Caenorhabditis briggsae] 1.0E-107
Protein Domains
Database ID Description E-Value
Pfam IPR000133 EMBL-EBI ER lumen protein retaining receptor 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509703.1 5 58-80,93-115,119-138,151-168,178-200
F09B9.3 5 58-80,93-115,119-138,151-168,178-200
Sequence
Target Sequence 
>C. ELEGANS:173939_AT
gtccgcataaattcttgtcgactgcaatcaacatctatcattttaactcatctttcatat
atttttctaatttctatgatttctttctatcaaagggtgtttaaactgttataatattat
tttttaagttctccgattcccaaaaacattgtttttccaaacgcgaggtgatatcaaaca
gcaccctatttgggcgtcctcgttttccctccaaagtcattgtgtcttttactgagctat
ttatttctatttattgagtgtatttcaaatttcaaatcgagtgtgtttttgttttattat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCCGCATAAATTCTTGTCGACTGC 118 477 646 Antisense
GTCGACTGCAATCAACATCTATCAT 211 475 662 Antisense
CATCTATCATTTTAACTCATCTTTC 369 213 677 Antisense
CTAATTTCTATGATTTCTTTCTATC 682 227 712 Antisense
TAAGTTCTCCGATTCCCAAAAACAT 580 637 770 Antisense
GTTTTTCCAAACGCGAGGTGATATC 126 437 796 Antisense
AAACAGCACCCTATTTGGGCGTCCT 495 111 821 Antisense
GTTTTCCCTCCAAAGTCATTGTGTC 141 449 847 Antisense
GTCATTGTGTCTTTTACTGAGCTAT 438 467 861 Antisense
ACTGAGCTATTTATTTCTATTTATT 607 97 876 Antisense
ATCGAGTGTGTTTTTGTTTTATTAT 292 37 921 Antisense
Sequence Source Affymetrix Proprietary Database