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[173371_s_at] coatomer, alpha chain

Description AV180315_rc /REP_DB=TREMBL Accession /GB=AV180315 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk605f2 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 73      6grp_high1_10_10 > 02      4grp_highest_8_8 > 16      4grp_high_8_8 > 52      6grp_highest_nonorm > 76      6grp_total > 07      4grp_total > 59      6grp_highest_sub > Cu      6grp_high1_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 686
1 2 3 4 range
A 1510.4
(1.3)
P 		1704.6
(3)
P 		1456.2
(0.8)
P 		1018.2
(-3)
P 		686
B 1442.4
(1.1)
P 		1598
(2.9)
P 		1605.6
(3)
P 		1098.5
(-3)
P 		507
C 1329
(-0.7)
P 		1512.4
(2.3)
P 		1553
(3)
P 		1185.9
(-3)
P 		367
avr 1427.3
(0.9) 		1605
(3) 		1538.3
(2.2) 		1100.9
(-3) 		504

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 857
1 2 3 4 5 6 range
A 1261.7
(3)
P 		1099.8
(0.7)
P 		1170.5
(1.7)
P 		1223.1
(2.4)
P 		842.2
(-3)
P 		1232.2
(2.6)
P 		420
B 1699.3
(3)
P 		1307.9
(-0)
P 		1453.3
(1.1)
P 		1292.5
(-0.1)
P 		920.7
(-3)
P 		1228.8
(-0.6)
P 		779
C 1430.4
(3)
P 		1377.8
(1.9)
P 		1133.4
(-3)
P 		1160.1
(-2.5)
P 		1157.1
(-2.5)
P 		1183.8
(-2)
P 		297
avr 1463.8
(3) 		1261.8
(0.5) 		1252.4
(0.4) 		1225.2
(0.1) 		973.3
(-3) 		1214.9
(-0) 		491
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 401
1 2 3 4 range
A 550
(3)
P 		370
(0.3)
P 		380.7
(0.5)
P 		149.1
(-3)
P 		401
B 460
(3)
P 		394.7
(1.3)
P 		372.1
(0.7)
P 		234.1
(-3)
P 		226
C 439.9
(1.2)
P 		434.8
(1.1)
P 		541.3
(3)
P 		200
(-3)
P 		341
avr 483.3
(3) 		399.8
(1.3) 		431.4
(1.9) 		194.4
(-3) 		289

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 359
1 2 3 4 5 6 range
A 232.6
(-3)
P 		391.1
(3)
P 		254.9
(-2.2)
P 		310.2
(-0.1)
P 		254.1
(-2.2)
P 		300
(-0.4)
P 		159
B 591.3
(3)
P 		435.3
(-0.8)
P 		352.9
(-2.7)
P 		342.3
(-3)
P 		374.1
(-2.2)
P 		458.2
(-0.2)
P 		249
C 530.2
(3)
P 		420.4
(0.8)
P 		288.5
(-1.9)
P 		233.3
(-3)
P 		374.4
(-0.1)
P 		396.3
(0.3)
P 		297
avr 451.4
(3) 		415.6
(1.6) 		298.8
(-2.9) 		295.3
(-3) 		334.2
(-1.5) 		384.8
(0.4) 		156
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173371_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27773
Sequence Type Exemplar sequence
Representative Public ID AV180315 NCBI
Target Description AV180315_rc /REP_DB=TREMBL Accession /GB=AV180315 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk605f2 : 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 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 11/11 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:2895426-2895695(-) 83.86 83.86
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:173371_S_AT
ccactctgtaaatgcccgtattgtggagcatcgtactctgaagggctcgagggagaagtg
tgcaacgtgtgccaggttgcagaagttggaaagaatgttcttgggctccgaatctcaact
ctgaagagcta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCACTCTGTAAATGCCCGTATTGTG 575 273 14 Antisense
TGCCCGTATTGTGGAGCATCGTACT 372 583 26 Antisense
GTGGAGCATCGTACTCTGAAGGGCT 119 491 36 Antisense
GCATCGTACTCTGAAGGGCTCGAGG 172 309 41 Antisense
GTACTCTGAAGGGCTCGAGGGAGAA 298 459 46 Antisense
GAGGGAGAAGTGTGCAACGTGTGCC 563 401 62 Antisense
AGAAGTGTGCAACGTGTGCCAGGTT 271 75 67 Antisense
ACGTGTGCCAGGTTGCAGAAGTTGG 141 93 78 Antisense
AAGAATGTTCTTGGGCTCCGAATCT 432 151 104 Antisense
GGCTCCGAATCTCAACTCTGAAGAG 220 535 117 Antisense
TCCGAATCTCAACTCTGAAGAGCTA 613 593 120 Antisense
Sequence Source Affymetrix Proprietary Database