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[173776_s_at] RAS-related protein

Description C59615_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=D1037.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C59615 /WB_GENE_ID=D1037.4 /WP=CE20623 /CHR=1 /FEA=Genomic Cluster /DEF=RAS-related protein; C.elegans cDNA clone yk439c11 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 69      6grp_high1_10_10 > 97      4grp_highest_8_8 > 23      4grp_high_8_8 > 06      6grp_highest_nonorm > 75      6grp_total > 96      4grp_total > 02      6grp_highest_sub > In      6grp_cgc > 68      6grp_high1_sub > In      6grp_cgc_sub > In      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2329
1 2 3 4 range
A 718.6
(-2.6)
P 		740.6
(-2.6)
P 		570
(-3)
P 		2898.6
(3)
P 		2329
B 792.5
(-2.7)
P 		689.5
(-3)
P 		716.8
(-2.9)
P 		2526.2
(3)
P 		1837
C 805.4
(-2.4)
P 		657.5
(-3)
P 		660.6
(-3)
P 		2223.8
(3)
P 		1566
avr 772.2
(-2.6) 		695.9
(-2.9) 		649.1
(-3) 		2549.5
(3) 		1900

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 439
1 2 3 4 5 6 range
A 767.6
(-2.2)
P 		747.5
(-3)
P 		782.5
(-1.6)
P 		899.6
(2.9)
P 		792.9
(-1.2)
P 		901.3
(3)
P 		154
B 770.4
(-3)
P 		776.5
(-2.9)
P 		791.8
(-2.6)
P 		966.6
(0.3)
P 		1132.5
(3)
P 		1012.6
(1)
P 		362
C 735.3
(-2.3)
P 		764.9
(-1.8)
P 		693.8
(-3)
P 		741.3
(-2.2)
P 		785.2
(-1.4)
P 		1036.5
(3)
P 		343
avr 757.8
(-3) 		763
(-2.8) 		756
(-3) 		869.2
(-0) 		903.5
(0.9) 		983.5
(3) 		228
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 389
1 2 3 4 range
A 261.6
(-0.5)
P 		160.8
(-2.7)
P 		149
(-3)
P 		424.3
(3)
P 		275
B 252.7
(-1.6)
P 		170.3
(-2.9)
P 		166.1
(-3)
P 		538.3
(3)
P 		372
C 266.6
(-0.5)
P 		189
(-3)
P 		230.2
(-1.7)
P 		375
(3)
P 		186
avr 260.3
(-1.1) 		173.4
(-3) 		181.8
(-2.8) 		445.9
(3) 		273

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 319
1 2 3 4 5 6 range
A 141.5
(-3)
P 		265.9
(3)
P 		170.4
(-1.6)
P 		228.2
(1.2)
P 		239.3
(1.7)
P 		219.4
(0.8)
P 		124
B 268.1
(-1.3)
P 		258.5
(-1.5)
P 		192.3
(-3)
P 		256
(-1.6)
P 		460.1
(3)
P 		377.6
(1.2)
P 		268
C 272.6
(0.7)
P 		233.4
(-0.4)
P 		176.6
(-2.2)
P 		149.1
(-3)
P 		254.1
(0.2)
P 		347
(3)
P 		198
avr 227.4
(-0.9) 		252.6
(0.2) 		179.8
(-3) 		211.1
(-1.6) 		317.8
(3) 		314.7
(2.9) 		138
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173776_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22568
Sequence Type Exemplar sequence
Representative Public ID C59615 NCBI
Target Description C59615_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=D1037.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C59615 /WB_GENE_ID=D1037.4 /WP=CE20623 /CHR=1 /FEA=Genomic Cluster /DEF=RAS-related protein; C.elegans cDNA clone yk439c11 : 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_058798(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058798 NCBI Caenorhabditis elegans RAB family member (rab-8) (rab-8) mRNA, complete cds. 10/11 A 
D1037.4 ENSEMBL cdna:known chromosome:CEL140:I:3682875:3684105:-1 gene:D1037.4 10/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000024408 6/11 Cross Hyb Matching Probes None
GENEFINDER00000024416 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:3682885-3684062(-) 100.0 100.0
Public Domain and Genome References
Gene Title RAS-related protein
Gene Symbol rab-8
Ensembl D1037.4
Entrez Gene 171935 Entrez gene
SwissProt Q9TYS2 EMBL-EBI
WormBase CE30373 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:16142_AT Ras-related protein (ARA-3) / small GTP-binding protein, putative at
ATH1-121501:252514_AT Ras-related protein (ARA-3) / small GTP-binding protein, putative at
CHICKEN:GGA.13026.1.S1_AT similar to GTPase Rab8b gga
HG-U133_PLUS_2:222846_AT RAB8B, member RAS oncogene family hs
HG-U133B:222846_AT RAB8B, member RAS oncogene family hs
HG-U133_PLUS_2:219210_S_AT RAB8B, member RAS oncogene family hs
HG-U133A:219210_S_AT RAB8B, member RAS oncogene family hs
HG-FOCUS:219210_S_AT RAB8B, member RAS oncogene family hs
HG-U133A_2:219210_S_AT RAB8B, member RAS oncogene family hs
HU35KSUBA:T10792_AT RAB8B, member RAS oncogene family hs
HU35KSUBC:RC_AA156230_AT RAB8B, member RAS oncogene family hs
U133_X3P:G7706562_3P_S_AT RAB8B, member RAS oncogene family hs
U133_X3P:HS.95388.0.A1_3P_AT RAB8B, member RAS oncogene family hs
U133_X3P:HS.321245.0.S2_3P_AT RAB8B, member RAS oncogene family hs
HG-U133_PLUS_2:226633_AT RAB8B, member RAS oncogene family hs
HG-U133B:226633_AT RAB8B, member RAS oncogene family hs
HG-U95B:55673_AT RAB8B, member RAS oncogene family hs
HG-U95B:59515_AT RAB8B, member RAS oncogene family hs
HG-U95E:88528_AT RAB8B, member RAS oncogene family hs
HG-U95E:85842_AT RAB8B, member RAS oncogene family hs
MU11KSUBB:MSA.13199.0_F_AT RAB8B, member RAS oncogene family mm
MG-U74AV2:104653_AT RAB8B, member RAS oncogene family mm
MG-U74BV2:116515_AT RAB8B, member RAS oncogene family mm
MOE430A:1426800_AT RAB8B, member RAS oncogene family mm
MOUSE430A_2:1426800_AT RAB8B, member RAS oncogene family mm
MOUSE430_2:1426800_AT RAB8B, member RAS oncogene family mm
MOE430A:1426799_AT RAB8B, member RAS oncogene family mm
MOUSE430A_2:1426799_AT RAB8B, member RAS oncogene family mm
MOUSE430_2:1426799_AT RAB8B, member RAS oncogene family mm
MOUSE430_2:1446103_AT RAB8B, member RAS oncogene family, mRNA (cDNA clone MGC:66509 IMAGE:6405462) mm
MOE430B:1446103_AT RAB8B, member RAS oncogene family, mRNA (cDNA clone MGC:66509 IMAGE:6405462) mm
MU19KSUBA:TC17714_AT RAB8B, member RAS oncogene family, mRNA (cDNA clone MGC:66509 IMAGE:6405462) mm
RG-U34A:U53475_AT RAB8B, member RAS oncogene family rn
RAE230A:1370539_AT RAB8B, member RAS oncogene family rn
RAT230_2:1370539_AT RAB8B, member RAS oncogene family rn
RAE230B:1391347_AT RAB8B, member RAS oncogene family rn
RAT230_2:1391347_AT RAB8B, member RAS oncogene family rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
160 two-component signal transduction system (phosphorelay) inferred from electronic annotation QuickGO AmiGO
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
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
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
5525 GTP binding inferred from electronic annotation QuickGO AmiGO
3924 GTPase activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK21367 Rab family protein 8 [Caenorhabditis elegans] ref|NP_491199.2| RAB family member (rab-8) [Caenorhabditis elegans] dbj|BAD07034.1| Rab8 [Caenorhabditis elegans] 1.0E-110
blast CAE66686 Hypothetical protein CBG12025 [Caenorhabditis briggsae] 1.0E-108
blast T33855 hypothetical protein D1037.4 - Caenorhabditis elegans 6.0E-91
Protein Domains
Database ID Description E-Value
Pfam IPR001806 EMBL-EBI Ras GTPase superfamily 2.6E-103
Sequence
Target Sequence 
>C. ELEGANS:173776_S_AT
gcatgcggcttcggatgtcgagaggatgatcatcggcaacaaatgtgatattgaagaacg
ccgtgaagtgtcgcgggaccgtggagagcagctcgcaatcgagtacggcacgaaattcct
ggaaacgtcggcgaaggccaatctgaatattgatgaagctttcttcacactggctcgtga
tatcaagagcaagatggagcagaacgagatgcgtgccgcaactggagctgcaatttgctt
taaatttattgctctctcgccatgttctgcccttttcgaagttgattgtgattcaattca
attcaacttcaatagtgtaccatatctcttttcatattttctttccgtt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCATGCGGCTTCGGATGTCGAGAGG 111 311 337 Antisense
GAACGCCGTGAAGTGTCGCGGGACC 422 347 392 Antisense
GTGTCGCGGGACCGTGGAGAGCAGC 500 485 404 Antisense
GCAGCTCGCAATCGAGTACGGCACG 418 313 424 Antisense
GAAACGTCGGCGAAGGCCAATCTGA 176 357 458 Antisense
ATGAAGCTTTCTTCACACTGGCTCG 232 45 489 Antisense
GGAGCAGAACGAGATGCGTGCCGCA 624 519 532 Antisense
TTAAATTTATTGCTCTCTCGCCATG 33 685 576 Antisense
TGTTCTGCCCTTTTCGAAGTTGATT 75 561 599 Antisense
AATAGTGTACCATATCTCTTTTCAT 441 173 647 Antisense
TCTCTTTTCATATTTTCTTTCCGTT 339 613 661 Antisense
Sequence Source Affymetrix Proprietary Database