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[187317_s_at]

Description C13B9.3 /REP_DB=WormBase Gene ID /WP=CE01778 /TR=SW:Q09236 /GB=AAA62516.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 06      6grp_high1_10_10 > 10      4grp_highest_8_8 > 02      4grp_high_8_8 > 55      6grp_highest_nonorm > 66      6grp_total > 40      4grp_total > 48      6grp_highest_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 735
1 2 3 4 range
A 1558.1
(-3)
P 		2098.8
(1.5)
P 		2274.8
(3)
P 		1896.3
(-0.2)
P 		717
B 1783.8
(-2.1)
P 		2109.6
(3)
P 		2110.5
(3)
P 		1723.5
(-3)
P 		387
C 1688.9
(-2.3)
P 		2127.7
(1.6)
P 		2292.8
(3)
P 		1604.5
(-3)
P 		688
avr 1676.9
(-3) 		2112
(1.8) 		2226
(3) 		1741.4
(-2.3) 		549

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 550
1 2 3 4 5 6 range
A 1715.7
(2.2)
P 		1653.1
(1.1)
P 		1638.1
(0.8)
P 		1757.5
(3)
P 		1558
(-0.7)
P 		1431.8
(-3)
P 		326
B 1812.8
(3)
P 		1658.9
(0.5)
P 		1497.6
(-2)
P 		1751
(2)
P 		1554.5
(-1.1)
P 		1437
(-3)
P 		376
C 1562.9
(-0.4)
P 		1576.9
(-0.2)
P 		1792.6
(2.1)
P 		1874.2
(3)
P 		1424.7
(-1.9)
P 		1324.7
(-3)
P 		550
avr 1697.1
(1.5) 		1629.6
(0.5) 		1642.8
(0.7) 		1794.2
(3) 		1512.4
(-1.3) 		1397.8
(-3) 		396
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 529
1 2 3 4 range
A 567.3
(2.5)
P 		455.6
(0.4)
P 		594.7
(3)
P 		277.6
(-3)
P 		317
B 568.8
(3)
P 		521
(1.6)
P 		489.1
(0.6)
P 		367.3
(-3)
P 		202
C 559.1
(0.3)
P 		611.7
(0.9)
P 		799.1
(3)
P 		270.5
(-3)
P 		529
avr 565.1
(1.8) 		529.4
(1.2) 		627.6
(3) 		305.1
(-3) 		323

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 315
1 2 3 4 5 6 range
A 316.3
(-3)
P 		587.9
(3)
P 		356.7
(-2.1)
P 		445.7
(-0.1)
P 		470.1
(0.4)
P 		348.6
(-2.3)
P 		272
B 630.8
(3)
P 		552.2
(1.2)
P 		363.7
(-3)
P 		463.8
(-0.8)
P 		631.6
(3)
P 		535.8
(0.9)
P 		268
C 579.3
(3)
P 		481.2
(0.1)
P 		456.2
(-0.6)
P 		376.9
(-3)
P 		461
(-0.5)
P 		443.5
(-1)
P 		202
avr 508.8
(1.7) 		540.4
(3) 		392.2
(-3) 		428.8
(-1.5) 		520.9
(2.2) 		442.6
(-1) 		148
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187317_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6106
Sequence Type Exemplar sequence
Representative Public ID C13B9.3 NCBI
Target Description C13B9.3 /REP_DB=WormBase Gene ID /WP=CE01778 /TR=SW:Q09236 /GB=AAA62516.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=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_066062(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066062 NCBI Caenorhabditis elegans C13B9.3 (C13B9.3) mRNA, complete cds. 11/11 None
SNAP00000006901 ENSEMBL cdna:SNAP chromosome:CEL140:III:6622884:6624896:-1 11/11 None
GENEFINDER00000006906 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6622884:6624896:-1 11/11 None
C13B9.3.1 ENSEMBL cdna:known chromosome:CEL140:III:6622611:6624907:-1 gene:C13B9.3 11/11 None
C13B9.3.2 ENSEMBL cdna:known chromosome:CEL140:III:6622650:6624914:-1 gene:C13B9.3 11/11 None
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
chrIII:6622882-6624895(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C13B9.3
Entrez Gene 175940 Entrez gene
SwissProt Q09236 EMBL-EBI
WormBase CE01778 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:250816_AT clathrin adaptor complexes medium subunit-related at
CANINE:1589644_AT similar to archain cfa
CANINE_2:CFA.20988.1.S1_S_AT similar to archain cfa
CANINE_2:CFAAFFX.19532.1.S1_S_AT similar to archain cfa
DROSOPHILA_2:1628472_AT coatomer protein dm
DROSGENOME1:142358_AT coatomer protein dm
HG-U133A:201176_S_AT archain 1 hs
HG-U133_PLUS_2:201176_S_AT archain 1 hs
HG-U133A_2:201176_S_AT archain 1 hs
HG-FOCUS:201176_S_AT archain 1 hs
HUGENEFL:X81198_AT archain 1 hs
U133_X3P:G11863153_3P_A_AT archain 1 hs
HG-U95AV2:34370_AT archain 1 hs
MOE430A:1423743_AT archain 1 mm
MOUSE430A_2:1423743_AT archain 1 mm
MOUSE430_2:1423743_AT archain 1 mm
MOE430A:1451089_A_AT archain 1 mm
MOUSE430A_2:1451089_A_AT archain 1 mm
MOUSE430_2:1451089_A_AT archain 1 mm
MOE430B:1436062_AT archain 1 mm
MOUSE430_2:1436062_AT archain 1 mm
MU11KSUBA:AA544759_S_AT archain 1 mm
MG-U74AV2:94512_F_AT archain 1 mm
MG-U74AV2:94513_R_AT archain 1 mm
MG-U74AV2:94514_S_AT archain 1 mm
MG-U74BV2:111446_AT archain 1 mm
MG-U74BV2:115361_AT Archain 1, mRNA (cDNA clone MGC:36506 IMAGE:5368060) mm
MU19KSUBB:TC30464_AT Archain 1, mRNA (cDNA clone MGC:36506 IMAGE:5368060) mm
MU19KSUBB:TC30566_AT Archain 1, mRNA (cDNA clone MGC:36506 IMAGE:5368060) mm
RG-U34B:RC_AA946440_AT archain rn
RAE230A:1398896_AT archain rn
RAT230_2:1398896_AT archain rn
RAE230B:1391658_AT archain rn
RAT230_2:1391658_AT archain rn
YEAST_2:1773173_AT Delta subunit of the coatomer complex (COPI), which coats Golgi-derived transport vesicles; involved in retrograde transport between Golgi and ER Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6886 intracellular protein transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
30125 clathrin vesicle coat inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAN73882 Hypothetical protein C13B9.3 [Caenorhabditis elegans] ref|NP_498463.1| C13B9.3 [Caenorhabditis elegans] sp|Q09236|COPD_CAEEL Probable coatomer delta subunit (Delta-coat protein) (Delta-COP) 0.0
blast CAE69165 Hypothetical protein CBG15197 [Caenorhabditis briggsae] 0.0
Sequence
Target Sequence 
>C. ELEGANS:187317_S_AT
cctctctattggatctcccgaatttattccaatttcaattaaaatgaataatggatctgc
agctggaactcaacttcaagttcatccaaatctcgataagaaggaatggcaatcttcgtc
gacactgaaaattaagccgaacggaaaaccatatccagttaactcagatgtgggaattct
caaatggaaaatggcactttccgaagaagagcagttgccaatttctttcaattgctggcc
tcaagaatcatctgatggagtccaagtcaatattgagtacacattgcaaagagaggacat
cactttgaacaatgttcgcatcattgtgccacttccaactgcgacagctccatccgttgg
tgagtgtgatggagaatatgagtaccacaagacgaagaacgtgattgtttggtccttagc
tgtgattgacagctcgaactcttcgggaacccttgaattctcagttccaaatggccattg
tgatcatttcttccctgtctccgttggattcacttctgaaaacttgtttgtgccgattac
tgtacaaaaagttgtgaaaaatgatggatcgccggtaacttattcagt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCTCTCTATTGGATCTCCCGAATTT 184 267 933 Antisense
GAATGGCAATCTTCGTCGACACTGA 112 333 1036 Antisense
AATTGCTGGCCTCAAGAATCATCTG 111 179 1162 Antisense
AATGTTCGCATCATTGTGCCACTTC 21 165 1243 Antisense
GACAGCTCCATCCGTTGGTGAGTGT 94 369 1275 Antisense
GTGATTGTTTGGTCCTTAGCTGTGA 347 485 1333 Antisense
GTGATTGACAGCTCGAACTCTTCGG 333 483 1354 Antisense
CTTCGGGAACCCTTGAATTCTCAGT 134 219 1373 Antisense
ATGGCCATTGTGATCATTTCTTCCC 673 53 1403 Antisense
AACTTGTTTGTGCCGATTACTGTAC 577 137 1453 Antisense
ATGGATCGCCGGTAACTTATTCAGT 551 51 1496 Antisense
Sequence Source Affymetrix Proprietary Database