[Home] | [Total List]

[171837_x_at] NADH-ubiquinone oxidoreductase 20 KD subunit

Description C59012_rc /REP_DB=TREMBL Accession /GB=C59012 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk386g11 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 23      6grp_high1_10_10 > 30      4grp_highest_8_8 > 22      4grp_high_8_8 > 06      6grp_highest_nonorm > 23      6grp_total > 43      4grp_total > 01      6grp_highest_sub > 01_02_03      6grp_high1_sub > 03      6grp_rule_based > S3      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3704
1 2 3 4 range
A 3050.7
(-0.9)
P 		2129.2
(-3)
P 		2712.2
(-1.7)
P 		4799.7
(3)
P 		2671
B 2483.6
(-3)
P 		2520
(-2.9)
P 		3053.5
(-1.9)
P 		5660.4
(3)
P 		3177
C 3099
(-2.5)
P 		2832.3
(-3)
P 		2988.2
(-2.7)
P 		5833.1
(3)
P 		3001
avr 2877.8
(-2.2) 		2493.8
(-3) 		2918
(-2.1) 		5431.1
(3) 		2937

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2167
1 2 3 4 5 6 range
A 1966.9
(-0.4)
P 		2780.1
(2.8)
P 		2819.4
(3)
P 		2186.6
(0.5)
P 		1319.5
(-3)
P 		1816.9
(-1)
P 		1500
B 2345.4
(-0.4)
P 		2343.1
(-0.4)
P 		3486.9
(3)
P 		1940.7
(-1.6)
P 		1460.4
(-3)
P 		1888.8
(-1.7)
P 		2027
C 3022.4
(3)
P 		2273.2
(-0)
P 		2867.6
(2.4)
P 		1782.5
(-2)
P 		2046.6
(-0.9)
P 		1536.7
(-3)
P 		1486
avr 2444.9
(0.5) 		2465.5
(0.5) 		3058
(3) 		1969.9
(-1.5) 		1608.8
(-3) 		1747.5
(-2.4) 		1449
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 744
1 2 3 4 range
A 1110.8
(3)
P 		462.2
(-3)
P 		709
(-0.7)
P 		702.6
(-0.8)
P 		649
B 792
(-1.3)
P 		622.4
(-3)
P 		707.6
(-2.1)
P 		1206.2
(3)
P 		584
C 1025.9
(2.6)
P 		814.3
(-3)
P 		1041.5
(3)
P 		983.6
(1.5)
P 		227
avr 976.2
(3) 		633
(-3) 		819.4
(0.3) 		964.1
(2.8) 		343

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 762
1 2 3 4 5 6 range
A 362.6
(-3)
P 		988.7
(3)
P 		614
(-0.6)
P 		554.6
(-1.2)
P 		398.2
(-2.7)
P 		442.4
(-2.2)
P 		626
B 816.1
(2.4)
P 		779.9
(1.8)
P 		846.7
(3)
P 		514
(-3)
P 		593.3
(-1.6)
P 		704.3
(0.4)
P 		333
C 1120.3
(3)
P 		693.6
(-0.4)
P 		729.9
(-0.1)
P 		358.5
(-3)
P 		662.3
(-0.6)
P 		514.4
(-1.8)
P 		762
avr 766.3
(2.1) 		820.7
(3) 		730.2
(1.4) 		475.7
(-3) 		551.3
(-1.7) 		553.7
(-1.6) 		345
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171837_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27868
Sequence Type Exemplar sequence
Representative Public ID C59012 NCBI
Target Description C59012_rc /REP_DB=TREMBL Accession /GB=C59012 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk386g11 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_060044
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060044 NCBI Caenorhabditis elegans W10D5.2 (W10D5.2) mRNA, complete cds. A 
W10D5.2.2 ENSEMBL cdna:known chromosome:CEL140:I:9116314:9119042:-1 gene:W10D5.2 A 
SNAP00000007423 ENSEMBL cdna:SNAP chromosome:CEL140:I:9116562:9118731:-1 None
W10D5.2.3 ENSEMBL cdna:known chromosome:CEL140:I:9116314:9118733:-1 gene:W10D5.2 None
W10D5.2.1 ENSEMBL cdna:known chromosome:CEL140:I:9116314:9118731:-1 gene:W10D5.2 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000007424 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:9116290-9116572(-) 88.33 88.33
Public Domain and Genome References
Gene Title NADH-ubiquinone oxidoreductase 20 KD subunit
Ensembl W10D5.2
Entrez Gene 172734 Entrez gene
SwissProt Q94360 EMBL-EBI
WormBase CE14780 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1636029_S_AT dm
DROSGENOME1:154574_AT dm
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6120 mitochondrial electron transport, NADH to ubiquinone inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8137 NADH dehydrogenase (ubiquinone) activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB02132 Hypothetical protein W10D5.2 [Caenorhabditis elegans] ref|NP_492445.1| W10D5.2 [Caenorhabditis elegans] sp|Q94360|NUKM_CAEEL Probable NADH-ubiquinone oxidoreductase 20 kDa subunit, mitochondrial precursor (Complex I-20KD) (CI-20KD) 1.0E-112
blast CAE67039 Hypothetical protein CBG12445 [Caenorhabditis briggsae] 1.0E-110
Protein Domains
Database ID Description E-Value
Pfam IPR006137 EMBL-EBI NADH ubiquinone oxidoreductase domain, 20 kDa subunit 4.5E-64
Sequence
Target Sequence 
>C. ELEGANS:171837_X_AT
gacatttatgtaccaggatgcccaccaactgctgaggcttttctatacggagttctccaa
ctttcaaaagaagatcaagcgtaagcgagaagctcaactttggtacagacgctaaannnn
nnnnnnnnnnnnnnnnnngtacgagaaagttggagaactgtgnnnnnnttcgcagnaaaa
tggtcattttgtacgagtaagccccacttcattcannnnnngtgtttctccnnnnnnnnn
nnnnnnnnnnnnnnnntgatctgatatcgatagtttcgttcg

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACATTTATGTACCAGGATGCCCAC 29 371 13 Antisense
TTTATGTACCAGGATGCCCACCAAC 594 673 17 Antisense
CCACCAACTGCTGAGGCTTTTCTAT 308 273 34 Antisense
AGGCTTTTCTATACGGAGTTCTCCA 137 55 47 Antisense
TACGGAGTTCTCCAACTTTCAAAAG 446 639 58 Antisense
AGAAGATCAAGCGTAAGCGAGAAGC 76 75 81 Antisense
AGCGAGAAGCTCAACTTTGGTACAG 195 83 96 Antisense
GCTCAACTTTGGTACAGACGCTAAA 196 301 104 Antisense
AATGGTCATTTTGTACGAGTAAGCC 142 151 191 Antisense
TTTTGTACGAGTAAGCCCCACTTCA 519 673 199 Antisense
GATCTGATATCGATAGTTTCGTTCG 590 417 270 Antisense
Sequence Source Affymetrix Proprietary Database