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[192681_at]

Description W09C2.3 /REP_DB=WormBase Gene ID /WP=CE25154 /GEN=mca-1 /TR=O45215 /GB=CAB61039.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=E1-E2 ATPases (2 domains)
Cluster 6grp_highest_10_10 > 40      6grp_high1_10_10 > 03      4grp_highest_8_8 > 47      4grp_high_8_8 > 11      6grp_highest_nonorm > 11      6grp_total > 25      4grp_total > 13      6grp_highest_sub > De      6grp_cgc > 21      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1730
1 2 3 4 range
A 2477.9
(0.6)
P 		1647.9
(-2.7)
P 		1564.9
(-3)
P 		3088.3
(3)
P 		1523
B 2237.1
(-0.5)
P 		2004.6
(-1.3)
P 		1502.5
(-3)
P 		3232.5
(3)
P 		1730
C 2547.8
(3)
P 		1820.5
(-3)
P 		1831.9
(-2.9)
P 		2518.3
(2.8)
P 		727
avr 2420.9
(0.6) 		1824.3
(-2.1) 		1633.1
(-3) 		2946.4
(3) 		1313

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1412
1 2 3 4 5 6 range
A 2386.9
(2.5)
P 		2488.8
(3)
P 		1339.9
(-2.1)
P 		1291.8
(-2.3)
P 		1140.9
(-3)
P 		1292
(-2.3)
P 		1348
B 2313.4
(3)
P 		1791.7
(0.5)
P 		1681.4
(-0.1)
P 		1373.9
(-1.6)
P 		1077.1
(-3)
P 		1133.5
(-2.7)
P 		1236
C 2367.9
(3)
P 		1779.5
(0)
P 		2038.6
(1.3)
P 		1179.2
(-3)
P 		1291.2
(-2.4)
P 		1184.5
(-3)
P 		1189
avr 2356.1
(3) 		2020
(1.3) 		1686.6
(-0.4) 		1281.6
(-2.4) 		1169.7
(-3) 		1203.3
(-2.8) 		1186
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 554
1 2 3 4 range
A 902.2
(3)
P 		357.7
(-3)
P 		409.1
(-2.4)
P 		452.1
(-2)
P 		545
B 713.4
(3)
P 		495.1
(-0.6)
P 		348.2
(-3)
P 		688.9
(2.6)
P 		365
C 843.4
(3)
P 		523.4
(-1.6)
P 		638.5
(0.1)
P 		424.6
(-3)
P 		419
avr 819.7
(3) 		458.7
(-3) 		465.3
(-2.9) 		521.9
(-1.9) 		361

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 648
1 2 3 4 5 6 range
A 440
(-1.5)
P 		885.1
(3)
P 		291.8
(-3)
P 		327.6
(-2.6)
P 		344.3
(-2.5)
P 		314.5
(-2.8)
P 		593
B 805
(3)
P 		596.4
(0.2)
P 		408.3
(-2.4)
P 		363.9
(-3)
P 		437.6
(-2)
P 		422.7
(-2.2)
P 		441
C 877.7
(3)
P 		543
(-0.1)
P 		518.9
(-0.4)
P 		237.1
(-3)
P 		417.8
(-1.3)
P 		396.5
(-1.5)
P 		641
avr 707.6
(3) 		674.8
(2.5) 		406.3
(-1.5) 		309.5
(-3) 		399.9
(-1.6) 		377.9
(-2) 		398
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192681_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8942
Sequence Type Exemplar sequence
Representative Public ID W09C2.3 NCBI
Target Description W09C2.3 /REP_DB=WormBase Gene ID /WP=CE25154 /GEN=mca-1 /TR=O45215 /GB=CAB61039.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=E1-E2 ATPases (2 domains)
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_069308(11), NM_001028256(11), NM_001028255(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069308 NCBI Caenorhabditis elegans Membrane Calcium ATPase family member (mca-1) (mca-1) mRNA, complete cds. 11/11 A 
NM_001028256 NCBI Caenorhabditis elegans Membrane Calcium ATPase family member (mca-1) (mca-1) mRNA, complete cds. 11/11 None
NM_001028255 NCBI Caenorhabditis elegans Membrane Calcium ATPase family member (mca-1) (mca-1) mRNA, complete cds. 11/11 None
SNAP00000018759 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9626500:9631624:-1 11/11 None
GENEFINDER00000018761 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9626500:9636170:-1 11/11 None
W09C2.3c ENSEMBL cdna:known chromosome:CEL140:IV:9625880:9631684:-1 gene:W09C2.3 11/11 None
W09C2.3a ENSEMBL cdna:known chromosome:CEL140:IV:9625880:9634925:-1 gene:W09C2.3 11/11 A 
W09C2.3b ENSEMBL cdna:known chromosome:CEL140:IV:9625887:9632088:-1 gene:W09C2.3 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
chrIV:9626505-9632033(-) 100.0 100.0
Public Domain and Genome References
Ensembl W09C2.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB61039 Hypothetical protein W09C2.3a [Caenorhabditis elegans] ref|NP_501709.2| Membrane Calcium ATPase family member (mca-1) [Caenorhabditis elegans] gb|AAR00671.1| membrane Calcium ATPase (136.6 kD) (mca-1) [Caenorhabditis elegans] 0.0
blast CAA92495 Hypothetical protein W09C2.3c [Caenorhabditis elegans] ref|NP_001023427.1| Membrane Calcium ATPase family member (mca-1) [Caenorhabditis elegans] gb|AAR00672.1| membrane Calcium ATPase (136.9 kD) (mca-1) [Caenorhabditis elegans] pir||T26294 hypothetical protein W09C2.3 - Caenorhabditis elegans 0.0
blast CAD59229 Hypothetical protein W09C2.3b [Caenorhabditis elegans] ref|NP_001023426.1| Membrane Calcium ATPase family member (mca-1) [Caenorhabditis elegans] emb|CAA11491.1| calcium ATPase [Caenorhabditis elegans] 0.0
Protein Families
Method ID Description E-Value
ec A1A3_HUMAN (P13637) Sodium/potassium-transporting ATPase alpha-3 chain (EC 3.6.3.9) (Sodium pump 3) (Na+/K+ ATPase 3) (Alpha(III)) 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006068 EMBL-EBI Cation transporting ATPase, C-terminal 2.2E-29
Pfam IPR008250 EMBL-EBI E1-E2 ATPase-associated region 1.1E-40
Pfam IPR005834 EMBL-EBI Haloacid dehalogenase-like hydrolase 1.4E-11
Pfam IPR004014 EMBL-EBI Cation transporting ATPase, N-terminal 7.2E-14
Pfam IPR006068 EMBL-EBI Cation transporting ATPase, C-terminal 2.2E-29
Pfam IPR008250 EMBL-EBI E1-E2 ATPase-associated region 1.1E-40
Pfam IPR005834 EMBL-EBI Haloacid dehalogenase-like hydrolase 1.4E-11
Pfam IPR004014 EMBL-EBI Cation transporting ATPase, N-terminal 7.2E-14
Pfam IPR006068 EMBL-EBI Cation transporting ATPase, C-terminal 2.2E-29
Pfam IPR008250 EMBL-EBI E1-E2 ATPase-associated region 1.1E-40
Pfam IPR005834 EMBL-EBI Haloacid dehalogenase-like hydrolase 1.4E-11
Pfam IPR004014 EMBL-EBI Cation transporting ATPase, N-terminal 7.2E-14
Pfam IPR006068 EMBL-EBI Cation transporting ATPase, C-terminal 2.2E-29
Pfam IPR008250 EMBL-EBI E1-E2 ATPase-associated region 1.1E-40
Pfam IPR005834 EMBL-EBI Haloacid dehalogenase-like hydrolase 1.4E-11
Pfam IPR004014 EMBL-EBI Cation transporting ATPase, N-terminal 7.2E-14
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501709.2 10 123-140,179-201,381-403,423-445,880-902,912-929,959-981,996-1013,1034-1056,1061-1083
NP_001023427.1 11 4-21,120-137,176-198,378-400,420-442,877-899,909-926,956-978,993-1010,1031-1053,1058-1080
NP_001023426.1 10 99-116,155-177,357-379,399-421,856-878,888-905,935-957,972-989,1010-1032,1037-1059
W09C2.3c 11 4-21,120-137,176-198,378-400,420-442,877-899,909-926,956-978,993-1010,1031-1053,1058-1080
W09C2.3a 10 123-140,179-201,381-403,423-445,880-902,912-929,959-981,996-1013,1034-1056,1061-1083
W09C2.3b 10 99-116,155-177,357-379,399-421,856-878,888-905,935-957,972-989,1010-1032,1037-1059
SNAP00000018759 11 4-21,120-137,176-198,378-400,420-442,877-899,909-926,956-978,993-1010,1031-1053,1058-1080
GENEFINDER00000018761 10 201-218,257-279,459-481,501-523,958-980,990-1007,1037-1059,1074-1091,1112-1134,1139-1161
Sequence
Target Sequence 
>C. ELEGANS:192681_AT
caattcggaggtgcctggttctcaactgctccacttacgcttcaacaatggattgtatgc
ctcgttcttggattctcaactcttatctggggacaaattgtggcaactatcccatcaaag
aagctaccaaaggcctggaaagttggaaagggagaagttcaaccagccaatcttcacatc
aatggagactacaatgtccgtgctcgttcccgtgcggttactcttcgcagatctggaaag
tcactctgggttagaggaatgttcattattggaaaccatctccgcgttcttcgtgctttc
ggaatggaaaagagtgaaaaggctgccttcggacgtactgctccagcaatgacggctgaa
gctgctgaacgctggcgtgccagttaccgcaagtaccgtcaccagaaacatcaagagaag
aaagccaccgcggaaactgctgaatctgtgaaatctgccgactgggcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAATTCGGAGGTGCCTGGTTCTCAA 667 177 3088 Antisense
TGCTCCACTTACGCTTCAACAATGG 437 581 3114 Antisense
GATTGTATGCCTCGTTCTTGGATTC 400 435 3138 Antisense
AAGTTCAACCAGCCAATCTTCACAT 319 157 3242 Antisense
TGGAGACTACAATGTCCGTGCTCGT 341 549 3270 Antisense
CGTGCGGTTACTCTTCGCAGATCTG 613 243 3298 Antisense
TGACGGCTGAAGCTGCTGAACGCTG 325 571 3437 Antisense
TGAACGCTGGCGTGCCAGTTACCGC 9 573 3453 Antisense
TTACCGCAAGTACCGTCACCAGAAA 710 681 3471 Antisense
AAGCCACCGCGGAAACTGCTGAATC 689 147 3509 Antisense
ATCTGTGAAATCTGCCGACTGGGCC 383 31 3531 Antisense
Sequence Source Affymetrix Proprietary Database