[Home] | [Total List]

[175373_s_at] Rab6 (ras protein)

Description AV185667_rc /REP_DB=TREMBL Accession /GB=AV185667 /CHR=3 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk681g4 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 69      6grp_high1_10_10 > 96      4grp_highest_8_8 > 11      4grp_high_8_8 > 55      6grp_highest_nonorm > 83      6grp_total > 86      4grp_total > 48      6grp_highest_sub > In      6grp_cgc > 58      6grp_high1_sub > In      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 298
1 2 3 4 range
A 268.4
(-3)
P 		532.5
(3)
P 		379.4
(-0.5)
P 		282.6
(-2.7)
P 		264
B 290.1
(-2.2)
P 		350.2
(-0.9)
P 		526.9
(3)
P 		251.8
(-3)
P 		275
C 259.6
(-3)
P 		381.6
(-0.5)
P 		549.7
(3)
P 		349.1
(-1.1)
P 		290
avr 272.7
(-3) 		421.4
(1.2) 		485.3
(3) 		294.5
(-2.4) 		213

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 444
1 2 3 4 5 6 range
A 333.4
(-3)
P 		382.5
(-2.2)
P 		465.5
(-0.9)
P 		417.9
(-1.6)
P 		542.2
(0.4)
P 		704.4
(3)
P 		371
B 347.8
(-3)
P 		377.9
(-2.5)
P 		437.1
(-1.6)
P 		466
(-1.2)
P 		560.9
(0.3)
P 		735.3
(3)
P 		388
C 291.4
(-3)
P 		438
(-0.3)
P 		335.3
(-2.2)
P 		500
(0.9)
P 		465.6
(0.2)
P 		613.4
(3)
P 		322
avr 324.2
(-3) 		399.5
(-1.7) 		412.6
(-1.5) 		461.3
(-0.7) 		522.9
(0.3) 		684.4
(3) 		360
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 150
1 2 3 4 range
A 97.7
(1.6)
P 		115.6
(3)
P 		99.2
(1.7)
P 		41.4
(-3)
P 		74
B 92.5
(0.4)
P 		86.5
(-0.1)
P 		122.1
(3)
P 		53.7
(-3)
P 		68
C 86
(-1.8)
P 		109.7
(-0.7)
P 		191.6
(3)
P 		58.9
(-3)
P 		133
avr 92.1
(-0.2) 		103.9
(0.7) 		137.6
(3) 		51.3
(-3) 		86

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 213
1 2 3 4 5 6 range
A 61.5
(-3)
P 		136
(1.1)
P 		101.4
(-0.8)
P 		106
(-0.6)
P 		163.6
(2.6)
P 		171.5
(3)
P 		110
B 121
(-2.5)
P 		125.8
(-2.3)
P 		106.1
(-3)
P 		123.4
(-2.4)
P 		227.9
(1.3)
P 		274.2
(3)
P 		168
C 108
(-1.9)
P 		133.7
(-0.6)
P 		85.3
(-3)
P 		100.5
(-2.2)
P 		150.7
(0.3)
P 		205.3
(3)
P 		120
avr 96.8
(-3) 		131.8
(-1.3) 		97.6
(-3) 		110
(-2.3) 		180.7
(1.2) 		217
(3) 		120
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175373_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20902
Sequence Type Exemplar sequence
Representative Public ID AV185667 NCBI
Target Description AV185667_rc /REP_DB=TREMBL Accession /GB=AV185667 /CHR=3 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk681g4 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic 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_066592(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 
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:9004790-9005180(-) 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
Sequence
Target Sequence 
>C. ELEGANS:175373_S_AT
cttccgcaaaatcgctacggcacttccaggaattgtccaagaggagacgcctgagcagcc
caacatcgttatcatgaatcctcctaaagacgcggaagagagccaaggccgtcaatgtcc
g

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTTCCGCAAAATCGCTACGGCACTT 313 219 24 Antisense
GCTACGGCACTTCCAGGAATTGTCC 43 303 37 Antisense
GCACTTCCAGGAATTGTCCAAGAGG 171 315 43 Antisense
GGAATTGTCCAAGAGGAGACGCCTG 608 531 52 Antisense
CCAAGAGGAGACGCCTGAGCAGCCC 213 277 60 Antisense
AGCAGCCCAACATCGTTATCATGAA 674 75 77 Antisense
ACATCGTTATCATGAATCCTCCTAA 392 105 86 Antisense
TATCATGAATCCTCCTAAAGACGCG 461 641 93 Antisense
GAATCCTCCTAAAGACGCGGAAGAG 99 329 99 Antisense
GACGCGGAAGAGAGCCAAGGCCGTC 288 381 112 Antisense
AGAGAGCCAAGGCCGTCAATGTCCG 179 69 120 Antisense
Sequence Source Affymetrix Proprietary Database