[Home] | [Total List]

[174068_s_at] RAS-related protein

Description C49001 /REP_DB=TREMBL Accession /GB=C49001 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk451h3 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 88      6grp_high1_10_10 > 98      4grp_highest_8_8 > 23      4grp_high_8_8 > 13      6grp_highest_nonorm > 83      6grp_total > 97      4grp_total > 02      6grp_highest_sub > Da      6grp_cgc > 69      6grp_high1_sub > In      6grp_cgc_sub > Da      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1133
1 2 3 4 range
A 437.8
(-2.4)
P 		354.8
(-3)
P 		406.6
(-2.6)
P 		1230.6
(3)
P 		876
B 439.6
(-2.8)
P 		497.9
(-2.5)
P 		406.8
(-3)
P 		1487.5
(3)
P 		1081
C 586.6
(-1.5)
P 		455.2
(-2.5)
P 		388.6
(-3)
P 		1161.7
(3)
P 		773
avr 488
(-2.4) 		436
(-2.8) 		400.7
(-3) 		1293.3
(3) 		893

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 257
1 2 3 4 5 6 range
A 337.5
(-3)
P 		407.9
(-0.3)
P 		491.8
(3)
P 		462
(1.8)
P 		429.1
(0.6)
P 		485.6
(2.8)
P 		154
B 450.2
(-1.3)
P 		391.2
(-3)
P 		491.5
(-0)
P 		491
(-0.1)
P 		594.5
(3)
P 		561.5
(2)
P 		203
C 584.3
(2.7)
P 		427.5
(-2.4)
P 		466.5
(-1.2)
P 		410.8
(-3)
P 		525.8
(0.8)
P 		592.5
(3)
P 		182
avr 457.3
(-0.9) 		408.9
(-3) 		483.3
(0.2) 		454.6
(-1) 		516.5
(1.7) 		546.5
(3) 		138
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 240
1 2 3 4 range
A 159.4
(1.8)
P 		77
(-3)
P 		106.3
(-1.3)
P 		180.1
(3)
P 		103
B 140.2
(-1.8)
P 		123
(-2.2)
P 		94.3
(-3)
P 		317
(3)
P 		223
C 194.2
(2.8)
P 		130.9
(-3)
P 		135.5
(-2.6)
P 		195.9
(3)
P 		65
avr 164.6
(-0.3) 		110.3
(-3) 		112
(-2.9) 		231
(3) 		121

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 179
1 2 3 4 5 6 range
A 62.2
(-3)
P 		145.1
(3)
P 		107.1
(0.2)
P 		117.2
(1)
P 		129.5
(1.9)
P 		118.2
(1.1)
P 		83
B 156.6
(-1.2)
P 		130.2
(-2.5)
P 		119.3
(-3)
P 		130
(-2.5)
P 		241.5
(3)
P 		209.4
(1.4)
P 		122
C 216.6
(3)
P 		130.4
(-0.9)
P 		118.7
(-1.4)
P 		82.6
(-3)
P 		170.1
(0.9)
P 		198.3
(2.2)
P 		134
avr 145.1
(-0) 		135.2
(-0.8) 		115
(-2.6) 		109.9
(-3) 		180.4
(3) 		175.3
(2.6) 		71
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174068_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20114
Sequence Type Exemplar sequence
Representative Public ID C49001 NCBI
Target Description C49001 /REP_DB=TREMBL Accession /GB=C49001 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk451h3 : 5prime 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(11)
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. 11/11 None
GENEFINDER00000024416 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:3683273:3684061:-1 11/11 None
D1037.4 ENSEMBL cdna:known chromosome:CEL140:I:3682875:3684105:-1 gene:D1037.4 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000024408 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:3683610-3684042(-) 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:174068_S_AT
taagctcttgcttattggagacagtggagtcggcaagacgtgcgtactgttccggttctc
agatgattcgttcaataactcgttcatttcaacaattggaatcgacttcaaaatccgtac
gattgagctcgatgggaagaaaatcaaacttcaaatttgggacacagccgggcaggagag
attcagaactatcacaacggcttattaccgcggtgctatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TAAGCTCTTGCTTATTGGAGACAGT 461 637 20 Antisense
GACAGTGGAGTCGGCAAGACGTGCG 541 369 39 Antisense
CGGCAAGACGTGCGTACTGTTCCGG 628 241 50 Antisense
ACTGTTCCGGTTCTCAGATGATTCG 682 95 65 Antisense
GATGATTCGTTCAATAACTCGTTCA 564 409 81 Antisense
CAATAACTCGTTCATTTCAACAATT 337 179 92 Antisense
AATCCGTACGATTGAGCTCGATGGG 637 167 131 Antisense
TTGGGACACAGCCGGGCAGGAGAGA 367 709 176 Antisense
AGCCGGGCAGGAGAGATTCAGAACT 693 83 185 Antisense
ATTCAGAACTATCACAACGGCTTAT 396 9 200 Antisense
AACGGCTTATTACCGCGGTGCTATG 62 139 215 Antisense
Sequence Source Affymetrix Proprietary Database