[Home] | [Total List]

[190887_s_at] coatomer, alpha chain

Description Y71F9AL.17 /REP_DB=WormBase Gene ID /WP=CE25555 /TR=Q9N4H7 /GB=AAF36010.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=coatomer, alpha chain
Cluster 6grp_highest_10_10 > 60      6grp_high1_10_10 > 07      4grp_highest_8_8 > 16      4grp_high_8_8 > 52      6grp_highest_nonorm > 57      6grp_total > 06      4grp_total > 59      6grp_highest_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1902
1 2 3 4 range
A 3032.6
(3)
P 		2993.7
(2.8)
P 		2863.2
(2.3)
P 		1540
(-3)
P 		1493
B 2452.3
(0.4)
P 		2967.8
(3)
P 		2885.8
(2.6)
P 		1790.9
(-3)
P 		1177
C 2631.6
(1)
P 		3149.8
(2.7)
P 		3250.7
(3)
P 		1349.1
(-3)
P 		1902
avr 2705.5
(1.7) 		3037.1
(3) 		2999.9
(2.8) 		1560
(-3) 		1477

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1666
1 2 3 4 5 6 range
A 2758.3
(3)
P 		2623.8
(2.1)
P 		1897.5
(-3)
P 		2608.7
(2)
P 		2185.3
(-1)
P 		2314.4
(-0.1)
P 		861
B 3563.6
(3)
P 		2714.7
(-0.4)
P 		2451.4
(-1.5)
P 		2443.3
(-1.6)
P 		2189
(-2.6)
P 		2086.3
(-3)
P 		1477
C 3506.7
(3)
P 		2526.4
(-0.7)
P 		2922.6
(0.8)
P 		2450.5
(-1)
P 		2426.9
(-1.1)
P 		1923.6
(-3)
P 		1583
avr 3276.2
(3) 		2621.6
(-0.4) 		2423.8
(-1.4) 		2500.8
(-1) 		2267.1
(-2.2) 		2108.1
(-3) 		1168
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 908
1 2 3 4 range
A 1104.2
(3)
P 		649.9
(-0.1)
P 		748.5
(0.6)
P 		225.4
(-3)
P 		879
B 782
(3)
P 		733
(2.3)
P 		668.7
(1.3)
P 		381.6
(-3)
P 		400
C 871.1
(1.3)
P 		905.6
(1.5)
P 		1133
(3)
P 		227.5
(-3)
P 		906
avr 919.1
(3) 		762.8
(1.5) 		850.1
(2.4) 		278.2
(-3) 		641

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 887
1 2 3 4 5 6 range
A 508.5
(-1.9)
P 		933.1
(3)
P 		413.2
(-3)
P 		661.6
(-0.1)
P 		659.4
(-0.2)
P 		563.5
(-1.3)
P 		520
B 1240
(3)
P 		903.6
(-0.1)
P 		595.3
(-3)
P 		647.2
(-2.5)
P 		889.4
(-0.3)
P 		778
(-1.3)
P 		645
C 1299.8
(3)
P 		770.9
(-0.9)
P 		743.9
(-1.1)
P 		492.8
(-3)
P 		785.3
(-0.8)
P 		643.9
(-1.9)
P 		807
avr 1016.1
(3) 		869.2
(1) 		584.1
(-3) 		600.5
(-2.8) 		778
(-0.3) 		661.8
(-1.9) 		432
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190887_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.152
Sequence Type Exemplar sequence
Representative Public ID Y71F9AL.17 NCBI
Target Description Y71F9AL.17 /REP_DB=WormBase Gene ID /WP=CE25555 /TR=Q9N4H7 /GB=AAF36010.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=coatomer, alpha chain
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_058668(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058668 NCBI Caenorhabditis elegans Y71F9AL.17 (Y71F9AL.17) mRNA, complete cds. 11/11 A 
SNAP00000005894 ENSEMBL cdna:SNAP chromosome:CEL140:I:2895563:2906484:-1 11/11 None
GENEFINDER00000005907 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:2895563:2900802:-1 10/11 None
Y71F9AL.17 ENSEMBL cdna:known chromosome:CEL140:I:2895330:2900861:-1 gene:Y71F9AL.17 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
chrI:2895562-2900802(-) 98.17 100.0
Public Domain and Genome References
Gene Title coatomer, alpha chain
Ensembl Y71F9AL.17
Entrez Gene 171860 Entrez gene
SwissProt Q9N4H7 EMBL-EBI
WormBase CE29136 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:264309_AT coatomer protein complex, subunit alpha, putative at
ATGENOME1:19648_AT coatomer protein complex, subunit alpha, putative at
CANINE:1586643_AT similar to Coatomer alpha subunit (Alpha-coat protein) (Alpha-COP) (HEPCOP) (HEP-COP) cfa
CANINE:1585097_AT similar to Coatomer alpha subunit (Alpha-coat protein) (Alpha-COP) (HEPCOP) (HEP-COP) cfa
CANINE_2:CFA.12470.1.A1_AT similar to Coatomer alpha subunit (Alpha-coat protein) (Alpha-COP) (HEPCOP) (HEP-COP) cfa
CANINE_2:CFA.1400.1.A1_AT similar to Coatomer alpha subunit (Alpha-coat protein) (Alpha-COP) (HEPCOP) (HEP-COP) cfa
CANINE_2:CFA.18358.1.S1_S_AT similar to Coatomer alpha subunit (Alpha-coat protein) (Alpha-COP) (HEPCOP) (HEP-COP) cfa
CANINE_2:CFAAFFX.19453.1.S1_S_AT similar to Coatomer alpha subunit (Alpha-coat protein) (Alpha-COP) (HEPCOP) (HEP-COP) cfa
DROSOPHILA_2:1632109_S_AT coatomer protein dm
DROSGENOME1:141206_AT coatomer protein dm
CHICKEN:GGA.7208.2.S1_A_AT coatomer protein complex, subunit alpha gga
CHICKEN:GGAAFFX.22818.1.S1_S_AT coatomer protein complex, subunit alpha gga
HG-U133_PLUS_2:208684_AT coatomer protein complex, subunit alpha hs
HG-U133A:208684_AT coatomer protein complex, subunit alpha hs
HG-U133A_2:208684_AT coatomer protein complex, subunit alpha hs
HG-FOCUS:208684_AT coatomer protein complex, subunit alpha hs
HG-U133_PLUS_2:214337_AT coatomer protein complex, subunit alpha hs
HG-U133A_2:214337_AT coatomer protein complex, subunit alpha hs
HG-U133A:214337_AT coatomer protein complex, subunit alpha hs
HU35KSUBC:RC_Z38656_AT coatomer protein complex, subunit alpha hs
HU35KSUBC:RC_AA470155_AT coatomer protein complex, subunit alpha hs
HUGENEFL:U24105_AT coatomer protein complex, subunit alpha hs
U133_X3P:G1638873_3P_X_AT coatomer protein complex, subunit alpha hs
U133_X3P:HS2.399734.1.S1_3P_AT coatomer protein complex, subunit alpha hs
U133_X3P:HS.75887.1.A1_3P_A_AT coatomer protein complex, subunit alpha hs
HG-U133_PLUS_2:1559862_AT coatomer protein complex, subunit alpha hs
HG-U133A_2:214336_S_AT coatomer protein complex, subunit alpha hs
HG-U133_PLUS_2:214336_S_AT coatomer protein complex, subunit alpha hs
HG-U133A:214336_S_AT coatomer protein complex, subunit alpha hs
HG-U95AV2:36962_AT coatomer protein complex, subunit alpha hs
MOUSE430_2:1415706_AT coatomer protein complex subunit alpha mm
MOE430B:1415706_AT coatomer protein complex subunit alpha mm
MOE430A:1415706_AT coatomer protein complex subunit alpha mm
MOUSE430A_2:1415706_AT coatomer protein complex subunit alpha mm
MU11KSUBA:AA259908_AT coatomer protein complex subunit alpha mm
MU11KSUBA:AA259908_G_AT coatomer protein complex subunit alpha mm
MG-U74AV2:96854_AT coatomer protein complex subunit alpha mm
MG-U74CV2:169022_R_AT coatomer protein complex subunit alpha mm
MOE430B:1437274_AT coatomer protein complex subunit alpha mm
MOUSE430_2:1437274_AT coatomer protein complex subunit alpha mm
MG-U74BV2:105201_AT Coatomer protein complex subunit alpha, mRNA (cDNA clone MGC:37774 IMAGE:5097228) mm
MOUSE430_2:1444532_AT Coatomer protein complex subunit alpha, mRNA (cDNA clone MGC:37774 IMAGE:5097228) mm
MOE430B:1444532_AT Coatomer protein complex subunit alpha, mRNA (cDNA clone MGC:37774 IMAGE:5097228) mm
MU19KSUBA:TC20145_AT Coatomer protein complex subunit alpha, mRNA (cDNA clone MGC:37774 IMAGE:5097228) mm
MU19KSUBA:TC20145_G_AT Coatomer protein complex subunit alpha, mRNA (cDNA clone MGC:37774 IMAGE:5097228) mm
RG-U34C:RC_AI175812_AT coatomer protein complex subunit alpha (predicted) rn
RAE230A:1388377_AT coatomer protein complex subunit alpha (predicted) rn
RAT230_2:1388377_AT coatomer protein complex subunit alpha (predicted) rn
YEAST_2:1771795_AT Alpha subunit of COPI vesicle coatomer complex, which surrounds transport vesicles in the early secretory pathway Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6886 intracellular protein transport inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8565 protein transporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAF36010 Hypothetical protein Y71F9AL.17 [Caenorhabditis elegans] ref|NP_491069.1| Y71F9AL.17 [Caenorhabditis elegans] 0.0
blast CAE60587 Hypothetical protein CBG04223 [Caenorhabditis briggsae] 0.0
blast XP_623198 PREDICTED: similar to ENSANGP00000002872 [Apis mellifera] 0.0
blast AAF47535 CG7961-PB, isoform B [Drosophila melanogaster] gb|AAF47534.1| CG7961-PA, isoform A [Drosophila melanogaster] ref|NP_728648.1| CG7961-PB, isoform B [Drosophila melanogaster] ref|NP_477395.1| CG7961-PA, isoform A [Drosophila melanogaster] gb|AAL68241.1| LD46584p [Drosophila melanogaster] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006692 EMBL-EBI Coatomer WD associated region 1.0E-126
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 4.9E-4
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 5.8E-11
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 9.1E-10
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 4.2E-12
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 6.0E-12
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 3.3E-8
Pfam IPR010714 EMBL-EBI Coatomer alpha subunit, C-terminal 1.0E-126
Pfam IPR006692 EMBL-EBI Coatomer WD associated region 1.0E-126
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.06
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 5.8E-11
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 9.1E-10
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 4.2E-12
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 6.0E-12
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 3.3E-8
Pfam IPR010714 EMBL-EBI Coatomer alpha subunit, C-terminal 1.0E-126
Pfam IPR010714 EMBL-EBI Coatomer alpha subunit, C-terminal 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:190887_S_AT
cgggagattcttctatctgttccactgatcgttgtgtcttcgaaacaagaagtcgccgaa
gcggagcagctcatcacaatcacacgggaatatcttgcagcacttctccttgaaacttat
cgaaaagatttgccaaaaacgaatttggaggatgcgaaacgcaacgccgaactagctgcc
tactttacacactttgagcttcaaccaatgcatcgtatcctgacactgagatctgctatc
aatactttcttcaaaatgaagcaaatgaagacttgtgcatcactttgcaaacgtctattg
gagctcgctccaaaaccagaagttgctgctcaaatccgaaaagtgctgactgccgccgag
aaggataacactgacgcgcatcagttgacctatgatgagcataatccattcgtcgtgtgc
tct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGGGAGATTCTTCTATCTGTTCCAC 576 243 3247 Antisense
GTTCCACTGATCGTTGTGTCTTCGA 207 441 3265 Antisense
GAAGTCGCCGAAGCGGAGCAGCTCA 477 335 3295 Antisense
GCAGCACTTCTCCTTGAAACTTATC 249 313 3343 Antisense
CGAAACGCAACGCCGAACTAGCTGC 392 249 3401 Antisense
GCCTACTTTACACACTTTGAGCTTC 527 263 3424 Antisense
CAATGCATCGTATCCTGACACTGAG 344 181 3452 Antisense
GATCTGCTATCAATACTTTCTTCAA 690 417 3476 Antisense
TGCAAACGTCTATTGGAGCTCGCTC 152 577 3532 Antisense
TGCTGACTGCCGCCGAGAAGGATAA 540 581 3590 Antisense
GCATAATCCATTCGTCGTGTGCTCT 433 309 3645 Antisense
Sequence Source Affymetrix Proprietary Database