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[190167_s_at] Rab6 (ras protein)

Description F59B2.7 /REP_DB=WormBase Gene ID /WP=CE00234 /TR=SW:P34213 /GB=CAA77590.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Rab6 (ras protein)
Cluster 6grp_highest_10_10 > 99      6grp_high1_10_10 > 92      4grp_highest_8_8 > 18      4grp_high_8_8 > 63      6grp_highest_nonorm > 63      6grp_total > 94      4grp_total > 56      6grp_cgc > 88      6grp_high1_sub > 04_05      6grp_total_sub > Hat      6grp_rule_based > S5      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 662
1 2 3 4 range
A 375.8
(-0.9)
P 		448.6
(0)
P 		688.3
(3)
P 		207.7
(-3)
P 		481
B 322.1
(-2.6)
P 		420.8
(-1.1)
P 		700.5
(3)
P 		293.9
(-3)
P 		407
C 360.9
(-1.9)
P 		541.2
(-0.2)
P 		869.5
(3)
P 		247.7
(-3)
P 		622
avr 352.9
(-1.8) 		470.2
(-0.4) 		752.8
(3) 		249.8
(-3) 		503

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 617
1 2 3 4 5 6 range
A 276.7
(-3)
P 		584.1
(0.6)
P 		532.3
(-0)
P 		635.2
(1.2)
P 		788.5
(3)
P 		760.6
(2.7)
P 		512
B 443.6
(-1)
P 		351.3
(-1.9)
P 		243.1
(-3)
P 		600.6
(0.6)
P 		847.2
(3)
P 		719.9
(1.7)
P 		604
C 458.6
(-2.3)
P 		484
(-2)
P 		520
(-1.5)
P 		639.1
(0.1)
P 		859.6
(3)
P 		408.6
(-3)
P 		451
avr 393
(-3) 		473.1
(-1.9) 		431.8
(-2.5) 		625
(0.2) 		831.8
(3) 		629.7
(0.2) 		439
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 273
1 2 3 4 range
A 136.8
(1.3)
P 		97.4
(-0.3)
P 		179.9
(3)
P 		30.4
(-3)
P 		150
B 102.7
(-0.6)
P 		103.9
(-0.5)
P 		162.3
(3)
P 		62.6
(-3)
P 		100
C 119.5
(-1.2)
P 		155.6
(-0.4)
P 		303.1
(3)
P 		41.8
(-3)
P 		261
avr 119.7
(-0.4) 		119
(-0.4) 		215.1
(3) 		44.9
(-3) 		170

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 293
1 2 3 4 5 6 range
A 51
(-3)
P 		207.7
(2)
P 		115.9
(-0.9)
P 		161.1
(0.5)
P 		237.9
(3)
P 		185.2
(1.3)
P 		187
B 154.4
(-1)
P 		116.9
(-1.8)
P 		59
(-3)
P 		159.1
(-0.9)
P 		344.2
(3)
P 		268.4
(1.4)
P 		285
C 170
(-1.3)
P 		147.7
(-2.2)
P 		132.3
(-2.8)
P 		128.5
(-3)
P 		278.2
(3)
P 		136.8
(-2.7)
P 		150
avr 125.1
(-2.3) 		157.4
(-1.2) 		102.4
(-3) 		149.6
(-1.5) 		286.8
(3) 		196.8
(0.1) 		184
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190167_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6344
Sequence Type Exemplar sequence
Representative Public ID F59B2.7 NCBI
Target Description F59B2.7 /REP_DB=WormBase Gene ID /WP=CE00234 /TR=SW:P34213 /GB=CAA77590.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Rab6 (ras protein)
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,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_066592(11), U68253(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066592 NCBI Caenorhabditis elegans RAB family member (rab-6.1) (rab-6.1) mRNA, complete cds. 11/11 A 
U68253 NCBI Caenorhabditis elegans rab6-like mRNA, partial cds. 11/11 None
SNAP00000012576 ENSEMBL cdna:SNAP chromosome:CEL140:III:9004935:9005855:-1 11/11 None
GENEFINDER00000012586 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:9004935:9005855:-1 11/11 None
F59B2.7 ENSEMBL cdna:known chromosome:CEL140:III:9004728:9005861:-1 gene:F59B2.7 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
chrIII:9004930-9005851(-) 100.0 100.0
Public Domain and Genome References
Gene Title Rab6 (ras protein)
Gene Symbol rab-6.1
Ensembl F59B2.7
Entrez Gene 176275 Entrez gene
SwissProt P34213 EMBL-EBI
WormBase CE00234 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:18682_S_AT Ras-related GTP-binding protein, putative at
ATH1-121501:266885_AT Ras-related GTP-binding protein, putative at
CANINE_2:CFAAFFX.10912.1.S1_AT similar to RAB6B, member RAS oncogene family cfa
HG-U133_PLUS_2:210127_AT RAB6B, member RAS oncogene family hs
HG-U133A:210127_AT RAB6B, member RAS oncogene family hs
HG-FOCUS:210127_AT RAB6B, member RAS oncogene family hs
HG-U133A_2:210127_AT RAB6B, member RAS oncogene family hs
HU35KSUBA:RC_AA443303_S_AT RAB6B, member RAS oncogene family hs
HU35KSUBA:AA443437_AT RAB6B, member RAS oncogene family hs
HU35KSUBB:RC_T23482_AT RAB6B, member RAS oncogene family hs
HU35KSUBD:RC_T33511_S_AT RAB6B, member RAS oncogene family hs
U133_X3P:G12803378_3P_AT RAB6B, member RAS oncogene family hs
U133_X3P:HS.89981.3.A2_3P_AT RAB6B, member RAS oncogene family hs
HG-U133A_2:221792_AT RAB6B, member RAS oncogene family hs
HG-FOCUS:221792_AT RAB6B, member RAS oncogene family hs
HG-U133_PLUS_2:221792_AT RAB6B, member RAS oncogene family hs
HG-U133A:221792_AT RAB6B, member RAS oncogene family hs
HG-U133_PLUS_2:225259_AT RAB6B, member RAS oncogene family hs
HG-U133B:225259_AT RAB6B, member RAS oncogene family hs
HG-U95AV2:36049_AT RAB6B, member RAS oncogene family hs
HG-U95B:52959_AT RAB6B, member RAS oncogene family hs
HG-U95B:52962_G_AT RAB6B, member RAS oncogene family hs
U133_X3P:HS.89981.3.A1_3P_AT RAB6B, member RAS oncogene family hs
MU11KSUBB:MSA.7305.0_S_AT RAB6B, member RAS oncogene family mm
MG-U74BV2:116873_AT RAB6B, member RAS oncogene family mm
MG-U74BV2:112948_AT RAB6B, member RAS oncogene family mm
MG-U74CV2:130540_AT RAB6B, member RAS oncogene family mm
MOE430A:1434914_AT RAB6B, member RAS oncogene family mm
MOUSE430A_2:1434914_AT RAB6B, member RAS oncogene family mm
MOUSE430_2:1434914_AT RAB6B, member RAS oncogene family mm
MOE430B:1460617_S_AT RAB6B, member RAS oncogene family mm
MOUSE430_2:1460617_S_AT RAB6B, member RAS oncogene family mm
MOE430B:1437107_AT RAB6B, member RAS oncogene family mm
MOUSE430_2:1437107_AT RAB6B, member RAS oncogene family mm
MOE430B:1455924_AT RAB6B, member RAS oncogene family mm
MOUSE430_2:1455924_AT RAB6B, member RAS oncogene family mm
MU19KSUBA:TC16688_AT RAB6B, member RAS oncogene family, mRNA (cDNA clone MGC:77988 IMAGE:6406134) mm
MU19KSUBA:TC18218_AT RAB6B, member RAS oncogene family, mRNA (cDNA clone MGC:77988 IMAGE:6406134) mm
MU19KSUBB:TC29662_AT RAB6B, member RAS oncogene family, mRNA (cDNA clone MGC:77988 IMAGE:6406134) mm
RG-U34B:RC_AI009969_AT RAB6B, member RAS oncogene family (predicted) rn
RAE230B:1392478_AT RAB6B, member RAS oncogene family (predicted) rn
RAT230_2:1392478_AT RAB6B, member RAS oncogene family (predicted) rn
RAE230A:1388632_AT RAB6B, member RAS oncogene family (predicted) rn
RAT230_2:1388632_AT RAB6B, member RAS oncogene family (predicted) rn
RG-U34B:RC_AI007905_AT RAB6B, member RAS oncogene family (predicted) rn
YEAST_2:1769908_AT GTPase, Ras-like GTP binding protein involved in the secretory pathway, required for fusion of endosome-derived vesicles with the late Golgi, maturation of the vacuolar carboxypeptidase Y; has similarity to the human GTPase, Rab6 Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6886 intracellular protein transport inferred from electronic annotation QuickGO AmiGO
7264 small GTPase mediated signal transduction inferred from electronic annotation QuickGO AmiGO
15031 protein transport inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5525 GTP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA77590 Hypothetical protein F59B2.7 [Caenorhabditis elegans] ref|NP_498993.1| RAB family member (rab-6.1) [Caenorhabditis elegans] sp|P34213|RAB6_CAEEL Ras-related protein Rab-6 homolog F59B2.7 1.0E-114
blast CAE62705 Hypothetical protein CBG06854 [Caenorhabditis briggsae] 1.0E-113
blast CAE69689 Hypothetical protein CBG15944 [Caenorhabditis briggsae] 9.0E-89
Protein Domains
Database ID Description E-Value
Pfam IPR001806 EMBL-EBI Ras GTPase superfamily 1.5E-88
Pfam IPR001806 EMBL-EBI Ras GTPase superfamily 1.8E-25
Sequence
Target Sequence 
>C. ELEGANS:190167_S_AT
ggctgatttcacaaataacgctctcaaaaagtttaagctcgtttttctcggcgaacagag
tgtgggaaaaacttctatcatcaccagattcatgtatgattcgtttgacaacacctatca
agccaccattggaattgactttctcagcaagactatgtatcttgaagacagaaccattcg
cctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGCTGATTTCACAAATAACGCTCTC 616 539 15 Antisense
AACGCTCTCAAAAAGTTTAAGCTCG 450 145 31 Antisense
TTAAGCTCGTTTTTCTCGGCGAACA 151 685 47 Antisense
TTTTCTCGGCGAACAGAGTGTGGGA 100 675 57 Antisense
GAGTGTGGGAAAAACTTCTATCATC 188 401 72 Antisense
ACTTCTATCATCACCAGATTCATGT 442 103 85 Antisense
TATGATTCGTTTGACAACACCTATC 24 653 109 Antisense
ACACCTATCAAGCCACCATTGGAAT 2 109 125 Antisense
GCCACCATTGGAATTGACTTTCTCA 122 281 136 Antisense
GACTTTCTCAGCAAGACTATGTATC 137 373 151 Antisense
TCTTGAAGACAGAACCATTCGCCTT 344 613 174 Antisense
Sequence Source Affymetrix Proprietary Database