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[176980_at]

Description Y67D8C.C /REP_DB=WormBase Gene ID /WP=CE26232 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAG23371.1
Cluster 6grp_total > 26      4grp_total > 44      6grp_cgc > 14      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 126
1 2 3 4 range
A 227.5
(2.5)
P 		235.1
(3)
M 		139.6
(-2.7)
A 		133.8
(-3)
A 		101
B 173.4
(3)
P 		168.3
(2.5)
A 		129.2
(-1.1)
M 		109
(-3)
A 		64
C 168.7
(-0.3)
P 		193.3
(3)
A 		148.3
(-3)
A 		169
(-0.2)
M 		45
avr 189.9
(2.1) 		198.9
(3) 		139
(-2.8) 		137.3
(-3) 		62

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 161
1 2 3 4 5 6 range
A 288.8
(3)
P 		156.7
(-1.9)
P 		187.4
(-0.8)
P 		128
(-3)
M 		199.5
(-0.3)
A 		166.8
(-1.6)
P 		161
B 244.3
(2.3)
P 		257.7
(3)
P 		214
(0.7)
P 		180.7
(-1)
P 		142.1
(-3)
A 		192.5
(-0.4)
P 		116
C 184.3
(-0.7)
P 		250.6
(3)
P 		149.4
(-2.7)
P 		167.4
(-1.7)
P 		143.7
(-3)
M 		172.2
(-1.4)
P 		107
avr 239.1
(3) 		221.7
(1.7) 		183.6
(-1.1) 		158.7
(-3) 		161.8
(-2.8) 		177.2
(-1.6) 		80
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 63
1 2 3 4 range
A 82.8
(3)
P 		51
(-0)
M 		36.5
(-1.4)
A 		19.6
(-3)
A 		63
B 55.3
(3)
P 		41.6
(0.4)
A 		29.9
(-1.7)
M 		23.2
(-3)
A 		32
C 55.8
(3)
P 		55.6
(3)
A 		51.7
(2.1)
A 		28.5
(-3)
M 		27
avr 64.6
(3) 		49.4
(0.8) 		39.4
(-0.7) 		23.8
(-3) 		41

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 53
1 2 3 4 5 6 range
A 53.2
(1.5)
P 		55.7
(2)
P 		40.8
(-1.2)
P 		32.5
(-3)
M 		60.2
(3)
A 		40.6
(-1.2)
P 		28
B 85
(2.9)
P 		85.8
(3)
P 		52
(-2.4)
P 		47.9
(-3)
P 		57.7
(-1.4)
A 		71.8
(0.8)
P 		38
C 68.3
(1.9)
P 		76.5
(3)
P 		38
(-2.4)
P 		33.7
(-3)
P 		46.5
(-1.2)
M 		57.7
(0.4)
P 		43
avr 68.8
(2.3) 		72.7
(3) 		43.6
(-2) 		38
(-3) 		54.8
(-0.1) 		56.7
(0.2) 		35
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176980_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19319
Sequence Type Exemplar sequence
Representative Public ID Y67D8C.C NCBI
Target Description Y67D8C.C /REP_DB=WormBase Gene ID /WP=CE26232 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAG23371.1
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_171299(9), NM_067893(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171299 NCBI Caenorhabditis elegans Membrane Calcium ATPase family member (mca-3) (mca-3) mRNA, complete cds. 9/11 None
NM_067893 NCBI Caenorhabditis elegans Membrane Calcium ATPase family member (mca-3) (mca-3) mRNA, complete cds. 9/11 None
SNAP00000001620 ENSEMBL cdna:SNAP chromosome:CEL140:IV:3103856:3106369:-1 11/11 None
GENEFINDER00000001624 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:3103351:3106369:-1 9/11 None
Y67D8C.10c ENSEMBL cdna:known chromosome:CEL140:IV:3103163:3131366:-1 gene:Y67D8C.10 9/11 A 
Y67D8C.10a ENSEMBL cdna:known chromosome:CEL140:IV:3103817:3131366:-1 gene:Y67D8C.10 9/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
177089 3 2 NM_001028385 176929_at (9)
NM_067893 176980_at (9)
NM_171299 176980_at (9)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:3103861-3106375(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y67D8C.10
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAM97979 Membrane calcium atpase protein 3, isoform c [Caenorhabditis elegans] ref|NP_741352.1| Membrane Calcium ATPase family member (mca-3) [Caenorhabditis elegans] 0.0
blast AAK68550 Membrane calcium atpase protein 3, isoform a [Caenorhabditis elegans] ref|NP_500294.2| Membrane Calcium ATPase family member (mca-3) [Caenorhabditis elegans] 0.0
blast CAE59888 Hypothetical protein CBG03371 [Caenorhabditis briggsae] 0.0
Protein Families
Method ID Description E-Value
ec A1A2_HUMAN (P50993) Sodium/potassium-transporting ATPase alpha-2 chain precursor (EC 3.6.3.9) (Sodium pump 2) (Na+/K+ ATPase 2) 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006068 EMBL-EBI Cation transporting ATPase, C-terminal 4.5E-18
Pfam IPR008250 EMBL-EBI E1-E2 ATPase-associated region 2.7E-21
Pfam IPR008250 EMBL-EBI E1-E2 ATPase-associated region 2.6E-18
Pfam IPR005834 EMBL-EBI Haloacid dehalogenase-like hydrolase 1.2E-12
Pfam IPR004014 EMBL-EBI Cation transporting ATPase, N-terminal 1.2E-22
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_741352.1 10 86-108,123-142,334-356,376-398,823-845,855-872,904-926,941-958,970-992,1007-1029
NP_500294.2 10 86-108,123-142,334-356,376-398,823-845,855-872,904-926,941-958,970-992,1007-1029
Y67D8C.10c 10 86-108,123-142,334-356,376-398,823-845,855-872,904-926,941-958,970-992,1007-1029
Y67D8C.10a 10 86-108,123-142,334-356,376-398,823-845,855-872,904-926,941-958,970-992,1007-1029
GENEFINDER00000001624 3 89-111,115-137,157-179
Sequence
Target Sequence 
>C. ELEGANS:176980_AT
tagatccagaatcccgccagatcttgaaaccgtggtgcctcgcccgaaccattcgcgtcg
tgaaggccttccaagccggactcgatcgtcgtgagcctagtttgactggacaatcggccg
cccgacttcgtgagattagtcggcaattacgacttcaagtcgactcggaaaatcgctcac
gatccacgtc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TAGATCCAGAATCCCGCCAGATCTT 425 653 17 Antisense
TCCAGAATCCCGCCAGATCTTGAAA 92 591 21 Antisense
ACTCGATCGTCGTGAGCCTAGTTTG 22 99 96 Antisense
GATCGTCGTGAGCCTAGTTTGACTG 375 417 100 Antisense
TCGTGAGCCTAGTTTGACTGGACAA 429 605 105 Antisense
GCCGCCCGACTTCGTGAGATTAGTC 142 285 133 Antisense
CTTCGTGAGATTAGTCGGCAATTAC 13 221 142 Antisense
GTCGGCAATTACGACTTCAAGTCGA 651 471 155 Antisense
CGACTTCAAGTCGACTCGGAAAATC 635 247 166 Antisense
GACTCGGAAAATCGCTCACGATCCA 254 375 178 Antisense
CGGAAAATCGCTCACGATCCACGTC 244 241 182 Antisense
Sequence Source Affymetrix Proprietary Database