[Home] | [Total List]

[174027_at]

Description g2826863 /REP_DB=GenBank Identifier /CHR=4 /FEA=Genomic Cluster
Cluster 6grp_highest_10_10 > 62      6grp_high1_10_10 > 26      4grp_highest_8_8 > 47      4grp_high_8_8 > 11      6grp_highest_nonorm > 02      6grp_total > 26      4grp_total > 13      6grp_highest_sub > Cu      6grp_cgc > 14      6grp_high1_sub > De      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2144
1 2 3 4 range
A 2883.9
(2.6)
P 		2447
(-0.8)
P 		2162.7
(-3)
P 		2939.4
(3)
P 		777
B 2906.2
(0.3)
P 		1935.7
(-2.4)
P 		1734.7
(-3)
P 		3878.7
(3)
P 		2144
C 2691.6
(0.3)
P 		2198.4
(-3)
P 		2202.5
(-3)
P 		3085.5
(3)
P 		887
avr 2827.2
(0.8) 		2193.7
(-2.2) 		2033.3
(-3) 		3301.2
(3) 		1268

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1828
1 2 3 4 5 6 range
A 2863.4
(3)
P 		2717.6
(2.3)
P 		1828
(-2)
P 		1629.8
(-3)
P 		1888.1
(-1.7)
P 		2051.3
(-0.9)
P 		1234
B 3195
(3)
P 		2868.6
(1.8)
P 		2152.1
(-0.9)
P 		2076.1
(-1.2)
P 		1605.6
(-3)
P 		2125.4
(-1)
P 		1589
C 3433.2
(3)
P 		2560.3
(0)
P 		2310.8
(-0.8)
P 		1771.2
(-2.7)
P 		1677.2
(-3)
P 		2227.3
(-1.1)
P 		1756
avr 3163.9
(3) 		2715.5
(1.1) 		2097
(-1.4) 		1825.7
(-2.6) 		1723.6
(-3) 		2134.7
(-1.3) 		1440
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 648
1 2 3 4 range
A 1050
(3)
P 		531.2
(-2)
P 		565.4
(-1.7)
P 		430.3
(-3)
P 		620
B 926.8
(3)
P 		478.1
(-2.1)
P 		402
(-3)
P 		826.5
(1.9)
P 		525
C 891
(3)
P 		632.1
(-1.2)
P 		767.6
(1)
P 		520.3
(-3)
P 		371
avr 955.9
(3) 		547.1
(-3) 		578.3
(-2.5) 		592.4
(-2.3) 		409

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 916
1 2 3 4 5 6 range
A 527.8
(-1.6)
P 		966.5
(3)
P 		398.1
(-3)
P 		413.4
(-2.8)
P 		569.7
(-1.2)
P 		499.4
(-1.9)
P 		568
B 1111.7
(3)
P 		954.8
(1.4)
P 		522.6
(-3)
P 		549.9
(-2.7)
P 		652.3
(-1.7)
P 		792.5
(-0.3)
P 		589
C 1272.5
(3)
P 		781.2
(-0.2)
P 		588.1
(-1.5)
P 		356.2
(-3)
P 		542.7
(-1.8)
P 		745.6
(-0.5)
P 		916
avr 970.7
(3) 		900.8
(2.2) 		502.9
(-2.3) 		439.8
(-3) 		588.2
(-1.3) 		679.2
(-0.3) 		531
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174027_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21360
Sequence Type Exemplar sequence
Representative Public ID 2826863 NCBI
Target Description g2826863 /REP_DB=GenBank Identifier /CHR=4 /FEA=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_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
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:9625927-9626325(-) 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
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
Sequence
Target Sequence 
>C. ELEGANS:174027_AT
gaaacatgaccaaacatatcctccaaatgtttttctctgggtcttctatccggttttttg
ataactggatggaaaatcgtagaagctatttgtctcatattccattgtttatatattcga
atgcgttttcattttttgttgttatagcatctaaaagtaaaactttatcgtttcgatgag
cccccatcaattttcttgcaaaacatttagcgcttcagctaaaggtgcagctcctctttc
atttccactctaattaccccccgctttttcttaactttcagacattttcactttctctct
ctcgtgaccacagttgtataatttatctctctgtgtctctgctctctcacactcactcaa
acttatga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAACATGACCAAACATATCCTCCA 197 357 13 Antisense
ATCCTCCAAATGTTTTTCTCTGGGT 524 37 30 Antisense
AGAAGCTATTTGTCTCATATTCCAT 205 75 93 Antisense
TTCGATGAGCCCCCATCAATTTTCT 366 695 184 Antisense
CTTGCAAAACATTTAGCGCTTCAGC 595 213 207 Antisense
TCAGCTAAAGGTGCAGCTCCTCTTT 624 623 227 Antisense
CCGCTTTTTCTTAACTTTCAGACAT 342 263 273 Antisense
CTTTCAGACATTTTCACTTTCTCTC 336 223 287 Antisense
CTCTCTCGTGACCACAGTTGTATAA 570 229 309 Antisense
GTATAATTTATCTCTCTGTGTCTCT 620 453 328 Antisense
CTCTCACACTCACTCAAACTTATGA 553 229 356 Antisense
Sequence Source GenBank