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[194204_x_at] RAS-related protein

Description C42556 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=K08F11.5 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C42556 /WB_GENE_ID=K08F11.5 /WP=CE11958 /CHR=4 /FEA=Genomic Cluster /DEF=RAS-related protein; C.elegans cDNA clone yk312h4 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 91      6grp_high1_10_10 > 29      4grp_highest_8_8 > 01      4grp_high_8_8 > 45      6grp_highest_nonorm > 74      6grp_total > 29      4grp_total > 50      6grp_high1_sub > Cu      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 521
1 2 3 4 range
A 589.6
(-2.6)
P 		941.6
(3)
P 		845.2
(1.5)
P 		561.6
(-3)
P 		380
B 612.1
(-3)
P 		967.2
(3)
P 		904.8
(1.9)
P 		740.3
(-0.8)
P 		355
C 724.7
(1.1)
P 		807.6
(2.4)
P 		849.7
(3)
P 		445.9
(-3)
P 		404
avr 642.1
(-1.9) 		905.5
(3) 		866.6
(2.3) 		582.6
(-3) 		323

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 266
1 2 3 4 5 6 range
A 676
(1.7)
P 		726.2
(3)
P 		535.4
(-1.9)
P 		491.8
(-3)
P 		621.6
(0.3)
P 		534.7
(-1.9)
P 		234
B 535.2
(-3)
P 		656.8
(0.9)
P 		724.6
(3)
P 		695.2
(2.1)
P 		658.8
(0.9)
P 		673.8
(1.4)
P 		189
C 702.1
(3)
P 		575.5
(-0.1)
P 		532.8
(-1.2)
P 		460
(-3)
P 		614.9
(0.8)
P 		627.6
(1.2)
P 		242
avr 637.8
(2.1) 		652.8
(3) 		597.6
(-0.2) 		549
(-3) 		631.8
(1.8) 		612
(0.6) 		104
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 221
1 2 3 4 range
A 214.7
(2.7)
P 		204.4
(2.3)
P 		221
(3)
P 		82.2
(-3)
P 		139
B 195.2
(-0.2)
P 		238.9
(3)
P 		209.7
(0.8)
P 		157.8
(-3)
P 		81
C 239.9
(1.5)
P 		232.2
(1.3)
P 		296.1
(3)
P 		75.2
(-3)
P 		221
avr 216.6
(1.9) 		225.2
(2.3) 		242.3
(3) 		105.1
(-3) 		137

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 175
1 2 3 4 5 6 range
A 124.6
(-2.7)
P 		258.3
(3)
P 		116.6
(-3)
P 		124.7
(-2.7)
P 		187.6
(0)
P 		130.2
(-2.4)
P 		142
B 186.2
(-2.3)
P 		218.6
(-0.2)
P 		176
(-3)
P 		184.1
(-2.5)
P 		267.7
(3)
P 		251.2
(1.9)
P 		92
C 260.3
(3)
P 		175.6
(-0)
P 		135.6
(-1.5)
P 		92.5
(-3)
P 		199
(0.8)
P 		210.1
(1.2)
P 		168
avr 190.4
(1) 		217.5
(3) 		142.7
(-2.4) 		133.8
(-3) 		218.1
(3) 		197.2
(1.5) 		84
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194204_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.25056
Sequence Type Exemplar sequence
Representative Public ID C42556 NCBI
Target Description C42556 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=K08F11.5 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C42556 /WB_GENE_ID=K08F11.5 /WP=CE11958 /CHR=4 /FEA=Genomic Cluster /DEF=RAS-related protein; C.elegans cDNA clone yk312h4 : 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_068219(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068219 NCBI Caenorhabditis elegans K08F11.5 (K08F11.5) mRNA, complete cds. 10/11 A 
SNAP00000001909 ENSEMBL cdna:SNAP chromosome:CEL140:IV:4710899:4715797:-1 10/11 None
GENEFINDER00000001917 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:4713014:4715797:-1 10/11 None
K08F11.5.2 ENSEMBL cdna:known chromosome:CEL140:IV:4712833:4715800:-1 gene:K08F11.5 10/11 None
K08F11.5.1 ENSEMBL cdna:known chromosome:CEL140:IV:4712833:4715798:-1 gene:K08F11.5 10/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_076909 5/11 Cross Hyb Matching Probes A 
NM_058778 7/11 Cross Hyb Matching Probes A 
GENEFINDER00000034074 7/11 Cross Hyb Matching Probes None
SNAP00000033990 7/11 Cross Hyb Matching Probes None
SNAP00000037134 5/11 Cross Hyb Matching Probes None
GENEFINDER00000037140 5/11 Cross Hyb Matching Probes None
Y47G6A.27 7/11 Cross Hyb Matching Probes A 
C47C12.4 5/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:4713020-4715804(-) 100.0 100.0
Public Domain and Genome References
Gene Title RAS-related protein
Ensembl K08F11.5
Entrez Gene 177238 Entrez gene
SwissProt Q94263 EMBL-EBI
WormBase CE11958 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:251158_AT GTP-binding protein-related at
CANINE:1605894_S_AT similar to mitochondrial Rho 1 cfa
CANINE:1603893_AT similar to mitochondrial Rho 1 cfa
CANINE:1591194_S_AT similar to mitochondrial Rho 1 cfa
CANINE_2:CFA.20637.1.A1_S_AT similar to mitochondrial Rho 1 cfa
CANINE_2:CFA.577.1.A1_AT similar to mitochondrial Rho 1 cfa
CANINE_2:CFAAFFX.28233.1.S1_S_AT similar to mitochondrial Rho 1 cfa
DROSOPHILA_2:1623553_A_AT Mitochondrial Rho dm
DROSGENOME1:150478_AT Mitochondrial Rho dm
CHICKEN:GGAAFFX.11614.1.S1_S_AT ras homolog gene family, member T1 gga
HG-U133_PLUS_2:224044_AT ras homolog gene family, member T1 hs
HG-U133B:224044_AT ras homolog gene family, member T1 hs
HG-U133_PLUS_2:222148_S_AT ras homolog gene family, member T1 hs
HG-U133A_2:222148_S_AT ras homolog gene family, member T1 hs
HG-U133A:222148_S_AT ras homolog gene family, member T1 hs
HG-U133_PLUS_2:218323_AT ras homolog gene family, member T1 hs
HG-U133A:218323_AT ras homolog gene family, member T1 hs
HG-U133A_2:218323_AT ras homolog gene family, member T1 hs
U133_X3P:G8922837_3P_AT ras homolog gene family, member T1 hs
U133_X3P:G12053352_3P_AT ras homolog gene family, member T1 hs
U133_X3P:HS.14202.2.S1_3P_A_AT ras homolog gene family, member T1 hs
HG-U95E:91428_AT ras homolog gene family, member T1 hs
HG-U95B:46345_AT Ras homolog gene family, member T1 hs
HG-U95B:50998_AT Ras homolog gene family, member T1 hs
HG-U95E:88314_R_AT Ras homolog gene family, member T1 hs
HU35KSUBC:RC_H86769_AT Ras homolog gene family, member T1 hs
HU35KSUBB:RC_H81937_AT Ras homolog gene family, member T1 hs
MU11KSUBA:AA674723_AT ras homolog gene family, member T1 mm
MG-U74AV2:95438_AT ras homolog gene family, member T1 mm
MOE430A:1423533_A_AT ras homolog gene family, member T1 mm
MOUSE430A_2:1423533_A_AT ras homolog gene family, member T1 mm
MOUSE430_2:1423533_A_AT ras homolog gene family, member T1 mm
MOE430B:1440853_AT ras homolog gene family, member T1 mm
MOUSE430_2:1440853_AT ras homolog gene family, member T1 mm
MOE430B:1441758_AT ras homolog gene family, member T1 mm
MOUSE430_2:1441758_AT ras homolog gene family, member T1 mm
MG-U74BV2:105714_AT Ras homolog gene family, member T1, mRNA (cDNA clone IMAGE:3601117) mm
MU19KSUBC:TC36921_AT Ras homolog gene family, member T1, mRNA (cDNA clone IMAGE:3601117) mm
RG-U34C:RC_AI228628_AT ras homolog gene family, member T1 (predicted) rn
RAE230A:1372731_AT ras homolog gene family, member T1 (predicted) rn
RAT230_2:1372731_AT ras homolog gene family, member T1 (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
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
5509 calcium ion binding inferred from electronic annotation QuickGO AmiGO
5525 GTP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB09163 Hypothetical protein K08F11.5 [Caenorhabditis elegans] ref|NP_500620.1| K08F11.5 [Caenorhabditis elegans] 0.0
blast CAE58574 Hypothetical protein CBG01740 [Caenorhabditis briggsae] 0.0
blast AAB09162 Tyrosinyl trna synthetase protein 1, isoform a [Caenorhabditis elegans] ref|NP_741382.1| tYrosinyl tRNA Synthetase family member (yrs-1) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 0.0014
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 8.5E-5
Pfam IPR001806 EMBL-EBI Ras GTPase superfamily 8.9E-9
Pfam IPR002305 EMBL-EBI Aminoacyl-tRNA synthetase, class Ib 1.2E-107
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_500620.1 1 603-622
K08F11.5.2 1 603-622
K08F11.5.1 1 603-622
GENEFINDER00000001917 1 603-622
Sequence
Target Sequence 
>C. ELEGANS:194204_X_AT
aagtcttccaatgcctggtagtcggagccaaggacgctggaaaaacagtcttcatgcaat
ccctagcaggacgtggaatggctgatgtagcacaaataggacgtcgtcattctccattcg
ttatcaatcgtgtccgagtgaaagaggagagcaagtacctgcttttgcgtgaagttgatg
ttctctcaccacaagatgcgctgggatccggcgagacgtcggcggacgtcgtcgctttcc
tctatgatatctcgaatccggattcattcgcgttctgcgctacagtttatcagaaatatt
tctatagaacaaaaacaccgtgtgtgatgattgccacgaaagttgaacgggaagaagttg
accagcgatgggaagtgccgccggaggaattctgtagacaatttgagctcccgaagccga
tcaagttctcgacgggcaagattggccaatcctcttcaccgatcttcgagcagctcgcca
tgatggcagtttatccacatctccgtcgtgttttctacctcaacgactcgaatcttctct
ccaaaatcacattcggcgctgccatagtagctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGTCTTCCAATGCCTGGTAGTCGG 144 157 1287 Antisense
AAACAGTCTTCATGCAATCCCTAGC 89 129 1329 Antisense
GTCATTCTCCATTCGTTATCAATCG 463 467 1392 Antisense
TGAAGTTGATGTTCTCTCACCACAA 431 575 1456 Antisense
GTCGCTTTCCTCTATGATATCTCGA 346 475 1517 Antisense
ATTCGCGTTCTGCGCTACAGTTTAT 242 9 1552 Antisense
GTGCCGCCGGAGGAATTCTGTAGAC 214 479 1661 Antisense
GAAGCCGATCAAGTTCTCGACGGGC 267 345 1699 Antisense
GCAAGATTGGCCAATCCTCTTCACC 301 321 1722 Antisense
TCGAATCTTCTCTCCAAAATCACAT 480 601 1814 Antisense
ACATTCGGCGCTGCCATAGTAGCTC 216 105 1835 Antisense
Sequence Source Affymetrix Proprietary Database