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[190035_s_at] RAS-related protein

Description C39F7.4 /REP_DB=WormBase Gene ID /WP=CE16905 /TR=Q9UAQ6 /GB=AAC69218.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=RAS-related protein
Cluster 6grp_highest_10_10 > 70      6grp_high1_10_10 > 08      4grp_highest_8_8 > 33      4grp_high_8_8 > 58      6grp_highest_nonorm > 0      6grp_total > 18      4grp_total > 61      6grp_highest_sub > De      6grp_cgc > 01      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 622
1 2 3 4 range
A 1544.3
(1.8)
P 		1343.4
(-1.7)
P 		1616.2
(3)
P 		1269.9
(-3)
P 		346
B 1863.1
(3)
P 		1390.3
(-3)
P 		1483.6
(-1.8)
P 		1480.3
(-1.9)
P 		473
C 1485.7
(-0.4)
P 		1806.3
(3)
P 		1575.9
(0.6)
P 		1241
(-3)
P 		565
avr 1631
(3) 		1513.3
(0.7) 		1558.6
(1.6) 		1330.4
(-3) 		301

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1840
1 2 3 4 5 6 range
A 1805.6
(3)
P 		1340.7
(-1.8)
P 		1416.7
(-1)
P 		1296.2
(-2.3)
P 		1452.4
(-0.6)
P 		1223.7
(-3)
P 		582
B 1639.7
(3)
P 		1336.1
(-1)
P 		1184.3
(-3)
P 		1529.5
(1.5)
P 		1283.1
(-1.7)
P 		1199.2
(-2.8)
P 		455
C 2995.4
(3)
P 		1398.9
(-2.2)
P 		1155.6
(-3)
P 		1315.3
(-2.5)
P 		1596.4
(-1.6)
P 		1375.6
(-2.3)
P 		1840
avr 2146.9
(3) 		1358.6
(-2.3) 		1252.2
(-3) 		1380.3
(-2.1) 		1444
(-1.7) 		1266.2
(-2.9) 		895
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 408
1 2 3 4 range
A 562.3
(3)
P 		291.6
(-1.3)
P 		422.5
(0.8)
P 		185.9
(-3)
P 		376
B 594.1
(3)
P 		343.4
(-2.4)
P 		343.8
(-2.4)
P 		315.5
(-3)
P 		279
C 491.8
(2)
P 		519.3
(2.5)
P 		549.3
(3)
P 		209.3
(-3)
P 		340
avr 549.4
(3) 		384.8
(-0.2) 		438.5
(0.9) 		236.9
(-3) 		313

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 846
1 2 3 4 5 6 range
A 332.9
(-1.8)
P 		476.8
(3)
P 		308.5
(-2.6)
P 		328.7
(-2)
P 		438.3
(1.7)
P 		297.9
(-3)
P 		179
B 570.5
(3)
P 		444.7
(0.3)
P 		287.6
(-3)
P 		405.1
(-0.5)
P 		521.3
(2)
P 		447.2
(0.4)
P 		283
C 1110.3
(3)
P 		426.9
(-1.8)
P 		294.1
(-2.8)
P 		264.5
(-3)
P 		516.6
(-1.2)
P 		460.5
(-1.6)
P 		846
avr 671.2
(3) 		449.5
(-0.6) 		296.7
(-3) 		332.8
(-2.4) 		492.1
(0.1) 		401.9
(-1.3) 		375
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190035_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15474
Sequence Type Exemplar sequence
Representative Public ID C39F7.4 NCBI
Target Description C39F7.4 /REP_DB=WormBase Gene ID /WP=CE16905 /TR=Q9UAQ6 /GB=AAC69218.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=RAS-related 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_070996(11), U68251(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070996 NCBI Caenorhabditis elegans RAB family member (rab-1) (rab-1) mRNA, complete cds. 11/11 A 
U68251 NCBI Caenorhabditis elegans rab1-like mRNA, partial cds. 11/11 None
GENEFINDER00000004838 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:1262904:1264229:-1 11/11 None
C39F7.4.2 ENSEMBL cdna:known chromosome:CEL140:V:1262459:1263821:-1 gene:C39F7.4 11/11 None
C39F7.4.1 ENSEMBL cdna:known chromosome:CEL140:V:1262459:1263819:-1 gene:C39F7.4 11/11 None
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
chrV:1262903-1263786(-) 100.0 100.0
Public Domain and Genome References
Gene Title RAS-related protein
Gene Symbol rab-1
Ensembl C39F7.4
Entrez Gene 178620 Entrez gene
SwissProt Q9UAQ6 EMBL-EBI
WormBase CE16905 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:264122_AT Ras-related protein (ARA-5) / small GTP-binding protein, putative at
ATGENOME1:18940_AT Ras-related protein (ARA-5) / small GTP-binding protein, putative at
ATGENOME1:18941_G_AT Ras-related protein (ARA-5) / small GTP-binding protein, putative at
DROSOPHILA_2:1634443_A_AT Rab-protein 1 dm
DROSGENOME1:143879_AT Rab-protein 1 dm
CHICKEN:GGA.13527.1.S1_AT RAB1A, member RAS oncogene family gga
CHICKEN:GGA.4553.1.S1_AT RAB1A, member RAS oncogene family gga
HG-U133_PLUS_2:213440_AT RAB1A, member RAS oncogene family hs
HG-U133A_2:213440_AT RAB1A, member RAS oncogene family hs
HG-U133A:213440_AT RAB1A, member RAS oncogene family hs
HG-U133_PLUS_2:208724_S_AT RAB1A, member RAS oncogene family hs
HG-U133A:208724_S_AT RAB1A, member RAS oncogene family hs
HG-FOCUS:208724_S_AT RAB1A, member RAS oncogene family hs
HG-U133A_2:208724_S_AT RAB1A, member RAS oncogene family hs
HG-U133_PLUS_2:207791_S_AT RAB1A, member RAS oncogene family hs
HG-U133A:207791_S_AT RAB1A, member RAS oncogene family hs
HG-U133A_2:207791_S_AT RAB1A, member RAS oncogene family hs
HG-U95AV2:1074_AT RAB1A, member RAS oncogene family hs
HC-G110:1074_AT RAB1A, member RAS oncogene family hs
HU35KSUBC:RC_AA400670_AT RAB1A, member RAS oncogene family hs
HUGENEFL:M28209_AT RAB1A, member RAS oncogene family hs
U133_X3P:G4758987_3P_A_AT RAB1A, member RAS oncogene family hs
U133_X3P:G12654174_3P_A_AT RAB1A, member RAS oncogene family hs
U133_X3P:HS.79507.2.A1_3P_X_AT RAB1A, member RAS oncogene family hs
U133_X3P:HS.79507.2.A1_3P_AT RAB1A, member RAS oncogene family hs
HG-U95AV2:32605_R_AT RAB1A, member RAS oncogene family hs
HG-U95AV2:34392_S_AT RAB1A, member RAS oncogene family hs
HG-U95AV2:34393_R_AT RAB1A, member RAS oncogene family hs
HG-U95C:61099_R_AT RAB1A, member RAS oncogene family hs
MOUSE430A_2:1416082_AT RAB1, member RAS oncogene family mm
MOUSE430_2:1416082_AT RAB1, member RAS oncogene family mm
MOE430A:1416082_AT RAB1, member RAS oncogene family mm
MOE430A:1448210_AT RAB1, member RAS oncogene family mm
MOUSE430A_2:1448210_AT RAB1, member RAS oncogene family mm
MOUSE430_2:1448210_AT RAB1, member RAS oncogene family mm
MU11KSUBB:Y00094_S_AT RAB1, member RAS oncogene family mm
MU11KSUBB:MSA.10700.0_F_AT RAB1, member RAS oncogene family mm
MG-U74AV2:92883_AT RAB1, member RAS oncogene family mm
MG-U74AV2:92882_AT RAB1, member RAS oncogene family mm
MOE430B:1457537_AT RAB1, member RAS oncogene family mm
MOUSE430_2:1457537_AT RAB1, member RAS oncogene family mm
MG-U74CV2:128872_F_AT RAB1, member RAS oncogene family, mRNA (cDNA clone MGC:6226 IMAGE:3592802) mm
MG-U74CV2:138119_AT RAB1, member RAS oncogene family, mRNA (cDNA clone MGC:6226 IMAGE:3592802) mm
MOUSE430A_2:1436034_AT RAB1, member RAS oncogene family, mRNA (cDNA clone MGC:6226 IMAGE:3592802) mm
MOE430A:1436034_AT RAB1, member RAS oncogene family, mRNA (cDNA clone MGC:6226 IMAGE:3592802) mm
MOUSE430_2:1436034_AT RAB1, member RAS oncogene family, mRNA (cDNA clone MGC:6226 IMAGE:3592802) mm
MU19KSUBA:TC23263_AT RAB1, member RAS oncogene family, mRNA (cDNA clone MGC:6226 IMAGE:3592802) mm
MU19KSUBB:TC31231_S_AT RAB1, member RAS oncogene family, mRNA (cDNA clone MGC:6226 IMAGE:3592802) mm
MU19KSUBB:TC31232_AT RAB1, member RAS oncogene family, mRNA (cDNA clone MGC:6226 IMAGE:3592802) mm
MU19KSUBB:TC32155_AT RAB1, member RAS oncogene family, mRNA (cDNA clone MGC:6226 IMAGE:3592802) mm
MU19KSUBB:TC33453_F_AT RAB1, member RAS oncogene family, mRNA (cDNA clone MGC:6226 IMAGE:3592802) mm
RG-U34A:J02998_AT RAB1, member RAS oncogene family rn
RG-U34C:RC_AI103094_AT RAB1, member RAS oncogene family rn
RAE230A:1398841_AT RAB1, member RAS oncogene family rn
RAT230_2:1398841_AT RAB1, member RAS oncogene family rn
RAE230A:1373022_AT RAB1, member RAS oncogene family rn
RAT230_2:1373022_AT RAB1, member RAS oncogene family rn
RG-U34B:RC_AI012991_AT RAB1, member RAS oncogene family rn
YEAST_2:1777154_AT Ras-like small GTPase, involved in the ER-to-Golgi step of the secretory pathway; complex formation with the Rab escort protein Mrs6p is required for prenylation of Ypt1p by protein geranylgeranyltransferase type II (Bet2p-Bet4p) Sc
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
Protein Similarities
Method ID Description E-Value
blast AAC69218 Rab family protein 1 [Caenorhabditis elegans] ref|NP_503397.1| RAB family member (rab-1) [Caenorhabditis elegans] 1.0E-105
blast CAE58008 Hypothetical protein CBG01077 [Caenorhabditis briggsae] 1.0E-105
blast AAH45014 Rab1-prov protein [Xenopus laevis] gb|AAH74522.1| MGC69496 protein [Xenopus tropicalis] ref|NP_001004787.1| MGC69496 protein [Xenopus tropicalis] 1.0E-87
Protein Domains
Database ID Description E-Value
Pfam IPR001806 EMBL-EBI Ras GTPase superfamily 7.7E-107
Pfam IPR001806 EMBL-EBI Ras GTPase superfamily 1.2E-38
Pfam IPR001806 EMBL-EBI Ras GTPase superfamily 7.7E-107
Sequence
Target Sequence 
>C. ELEGANS:190035_S_AT
atgaaccctgaatacgactacctcttcaaactcctcctcatcggagattctggcgtcgga
aaatcgtgcctgttgctgcgtttcgccgatgacacatacactgaatcatacatctccact
atcggagttgactttaaaatccgtactattgagctcgacggcaaaactatcaagcttcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGAACCCTGAATACGACTACCTCT 673 43 22 Antisense
TGAATACGACTACCTCTTCAAACTC 305 575 30 Antisense
CTTCAAACTCCTCCTCATCGGAGAT 37 223 45 Antisense
CTCATCGGAGATTCTGGCGTCGGAA 511 229 58 Antisense
GTCGGAAAATCGTGCCTGTTGCTGC 271 471 76 Antisense
TTGCTGCGTTTCGCCGATGACACAT 219 703 94 Antisense
GTTTCGCCGATGACACATACACTGA 464 451 101 Antisense
TACACTGAATCATACATCTCCACTA 427 643 118 Antisense
ACATCTCCACTATCGGAGTTGACTT 618 105 131 Antisense
TAAAATCCGTACTATTGAGCTCGAC 548 639 156 Antisense
CGACGGCAAAACTATCAAGCTTCAA 605 251 177 Antisense
Sequence Source Affymetrix Proprietary Database