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[189720_s_at] ras related protein

Description W03C9.3 /REP_DB=WormBase Gene ID /WP=CE03777 /TR=Q23146 /GB=CAA91357.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=ras related protein
Cluster 6grp_high1_10_10 > 66      6grp_total > 68      4grp_total > 06      6grp_cgc > 49      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 201
1 2 3 4 range
A 120.7
(1.9)
P 		17.1
(-3)
A 		97.9
(0.9)
A 		142.7
(3)
P 		126
B 131.7
(2.3)
P 		13.4
(-3)
A 		101.9
(0.9)
A 		148.4
(3)
P 		135
C 100.5
(-2.1)
M 		88.5
(-2.7)
A 		81.5
(-3)
A 		214.8
(3)
P 		133
avr 117.6
(0.6) 		39.7
(-3) 		93.8
(-0.5) 		168.6
(3) 		129

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 161
1 2 3 4 5 6 range
A 129.9
(3)
A 		65.3
(-2.2)
P 		89.5
(-0.3)
P 		55.5
(-3)
A 		124.5
(2.6)
P 		85.7
(-0.6)
P 		74
B 122.7
(-0.8)
P 		95
(-3)
P 		139.7
(0.6)
P 		103.7
(-2.3)
P 		112.1
(-1.6)
P 		169
(3)
P 		74
C 53.8
(-3)
A 		88.8
(-1.7)
P 		59.4
(-2.8)
A 		118.4
(-0.6)
M 		86.3
(-1.8)
P 		214.6
(3)
P 		161
avr 102.1
(-1.4) 		83
(-3) 		96.2
(-1.9) 		92.5
(-2.2) 		107.6
(-1) 		156.4
(3) 		73
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 41
1 2 3 4 range
A 43.9
(3)
P 		3.7
(-3)
A 		25.6
(0.3)
A 		20.9
(-0.4)
P 		40
B 42
(3)
P 		3.3
(-3)
A 		23.6
(0.1)
A 		31.6
(1.4)
P 		39
C 33.3
(1.4)
M 		25.5
(-3)
A 		28.4
(-1.4)
A 		36.2
(3)
P 		11
avr 39.7
(3) 		10.8
(-3) 		25.9
(0.1) 		29.6
(0.9) 		29

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 58
1 2 3 4 5 6 range
A 23.9
(-0.5)
A 		23.2
(-0.7)
P 		19.5
(-1.6)
P 		14.1
(-3)
A 		37.6
(3)
P 		20.9
(-1.3)
P 		24
B 42.7
(-0.4)
P 		31.6
(-2.3)
P 		33.9
(-1.9)
P 		27.5
(-3)
P 		45.6
(0.1)
P 		63
(3)
P 		36
C 20
(-2.5)
A 		27.1
(-1.7)
P 		15.1
(-3)
A 		23.8
(-2.1)
M 		27.9
(-1.6)
P 		71.8
(3)
P 		57
avr 28.9
(-1.6) 		27.3
(-1.9) 		22.8
(-2.8) 		21.8
(-3) 		37
(0) 		51.9
(3) 		30
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189720_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2785
Sequence Type Exemplar sequence
Representative Public ID W03C9.3 NCBI
Target Description W03C9.3 /REP_DB=WormBase Gene ID /WP=CE03777 /TR=Q23146 /GB=CAA91357.1 /SUBMIT=HINXTON /CHR=2 /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_064148(11), U68255(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064148 NCBI Caenorhabditis elegans RAB family member (rab-7) (rab-7) mRNA, complete cds. 11/11 A 
U68255 NCBI Caenorhabditis elegans rab7-like mRNA, partial cds. 11/11 None
SNAP00000007572 ENSEMBL cdna:SNAP chromosome:CEL140:II:11960905:11966805:-1 11/11 None
GENEFINDER00000007576 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11965307:11966805:-1 11/11 None
W03C9.3.1 ENSEMBL cdna:known chromosome:CEL140:II:11965125:11966836:-1 gene:W03C9.3 11/11 None
W03C9.3.2 ENSEMBL cdna:known chromosome:CEL140:II:11965558:11966834:-1 gene:W03C9.3 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
chrII:11965554-11966802(-) 100.0 100.0
Public Domain and Genome References
Gene Title ras related protein
Gene Symbol rab-7
Ensembl W03C9.3
Entrez Gene 174834 Entrez gene
SwissProt Q23146 EMBL-EBI
WormBase CE03777 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:259611_AT Ras-related GTP-binding protein, putative at
CANINE:1582667_AT RAB7, member RAS oncogene family cfa
CANINE_2:CFA.3878.1.S1_AT RAB7, member RAS oncogene family cfa
CANINE_2:CFAAFFX.7156.1.S1_S_AT RAB7, member RAS oncogene family cfa
CANINE_2:CFA.9615.1.S1_AT RAB7, member RAS oncogene family cfa
CANINE:1603025_AT RAB7, member RAS oncogene family cfa
DROSOPHILA_2:1632429_AT Rab-protein 7 dm
DROSGENOME1:151931_AT Rab-protein 7 dm
CHICKEN:GGA.19067.1.S1_AT RAB7, member RAS oncogene family gga
CHICKEN:GGA.5872.1.S1_S_AT RAB7, member RAS oncogene family gga
HUGENEFL:X93499_AT RAB7, member RAS oncogene family hs
U133_X3P:HS.237955.3.S2_3P_AT RAB7, member RAS oncogene family hs
U133_X3P:HS.237955.3.S1_3P_A_AT RAB7, member RAS oncogene family hs
HG-U133A_2:211960_S_AT RAB7, member RAS oncogene family hs
HG-U133_PLUS_2:211960_S_AT RAB7, member RAS oncogene family hs
HG-U133A:211960_S_AT RAB7, member RAS oncogene family hs
HG-U133A_2:211961_S_AT RAB7, member RAS oncogene family hs
HG-U133_PLUS_2:211961_S_AT RAB7, member RAS oncogene family hs
HG-U133A:211961_S_AT RAB7, member RAS oncogene family hs
HG-U133A_2:217267_S_AT RAB7, member RAS oncogene family hs
HG-U133_PLUS_2:217267_S_AT RAB7, member RAS oncogene family hs
HG-U133A:217267_S_AT RAB7, member RAS oncogene family hs
HG-U133A_2:217268_AT RAB7, member RAS oncogene family hs
HG-U133_PLUS_2:217268_AT RAB7, member RAS oncogene family hs
HG-U133A:217268_AT RAB7, member RAS oncogene family hs
HG-U133_PLUS_2:227602_AT RAB7, member RAS oncogene family hs
HG-U133B:227602_AT RAB7, member RAS oncogene family hs
HG-U133_PLUS_2:239405_AT RAB7, member RAS oncogene family hs
HG-U133B:239405_AT RAB7, member RAS oncogene family hs
HG-U95B:59300_AT RAB7, member RAS oncogene family hs
HG-U95D:85204_AT RAB7, member RAS oncogene family hs
HG-U95D:91381_AT RAB7, member RAS oncogene family hs
HU35KSUBB:RC_N57905_AT RAB7, member RAS oncogene family hs
U133_X3P:227602_3P_AT RAB7, member RAS oncogene family hs
U133_X3P:HS.15738.0.A1_3P_AT RAB7, member RAS oncogene family hs
U133_X3P:HS.237955.2.A1_3P_A_AT RAB7, member RAS oncogene family hs
U133_X3P:HS.237955.2.A1_3P_AT RAB7, member RAS oncogene family hs
MOE430A:1448159_AT RAB7, member RAS oncogene family mm
MOUSE430_2:1448159_AT RAB7, member RAS oncogene family mm
MOUSE430A_2:1448159_AT RAB7, member RAS oncogene family mm
MOUSE430_2:1415734_AT RAB7, member RAS oncogene family mm
MOE430B:1415734_AT RAB7, member RAS oncogene family mm
MOE430A:1415734_AT RAB7, member RAS oncogene family mm
MOUSE430A_2:1415734_AT RAB7, member RAS oncogene family mm
MU11KSUBB:X89650_S_AT RAB7, member RAS oncogene family mm
MG-U74AV2:95785_S_AT RAB7, member RAS oncogene family mm
MG-U74AV2:99587_AT RAB7, member RAS oncogene family mm
MU19KSUBC:TC36025_AT RAB7, member RAS oncogene family, mRNA (cDNA clone MGC:6009 IMAGE:3584891) mm
MU19KSUBC:TC36025_G_AT RAB7, member RAS oncogene family, mRNA (cDNA clone MGC:6009 IMAGE:3584891) mm
RG-U34A:X12535CDS_AT RAB7, member RAS oncogene family rn
RG-U34B:RC_AA946057_AT RAB7, member RAS oncogene family rn
RG-U34C:RC_AA818669_AT RAB7, member RAS oncogene family rn
RAE230A:1387797_AT RAB7, member RAS oncogene family rn
RAT230_2:1387797_AT RAB7, member RAS oncogene family rn
RAE230A:1398838_AT RAB7, member RAS oncogene family rn
RAT230_2:1398838_AT RAB7, member RAS oncogene family rn
YEAST_2:1778495_AT GTPase; GTP-binding protein of the rab family; required for homotypic fusion event in vacuole inheritance, for endosome-endosome fusion, similar to mammalian Rab7 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
3924 GTPase activity inferred from sequence similarity QuickGO AmiGO
5525 GTP binding inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA91357 Hypothetical protein W03C9.3 [Caenorhabditis elegans] ref|NP_496549.1| RAB family member (rab-7) [Caenorhabditis elegans] emb|CAE73411.1| Hypothetical protein CBG20853 [Caenorhabditis briggsae] 1.0E-108
blast CAA91357 Hypothetical protein W03C9.3 [Caenorhabditis elegans] ref|NP_496549.1| RAB family member (rab-7) [Caenorhabditis elegans] emb|CAE73411.1| Hypothetical protein CBG20853 [Caenorhabditis briggsae] 1.0E-103
blast CAA91357 Hypothetical protein W03C9.3 [Caenorhabditis elegans] ref|NP_496549.1| RAB family member (rab-7) [Caenorhabditis elegans] emb|CAE73411.1| Hypothetical protein CBG20853 [Caenorhabditis briggsae] 5.0E-91
blast AAU95201 putative Rab7 [Oncometopia nigricans] 5.0E-79
blast AAU95201 putative Rab7 [Oncometopia nigricans] 3.0E-78
blast CAA91358 Hypothetical protein W03C9.1 [Caenorhabditis elegans] ref|NP_496547.2| W03C9.1 [Caenorhabditis elegans] 6.0E-78
Protein Domains
Database ID Description E-Value
Pfam IPR001806 EMBL-EBI Ras GTPase superfamily 3.9E-87
Pfam IPR001806 EMBL-EBI Ras GTPase superfamily 4.4E-9
Pfam IPR001806 EMBL-EBI Ras GTPase superfamily 1.7E-10
Sequence
Target Sequence 
>C. ELEGANS:189720_S_AT
gggaaccagaaagaaggcgctgctcaaagtgatcattctcggagattcgggcgttggaaa
aacatctttgatgaatcaatatgtaaatcggcgatttagtaatcaatataaggcaacgat
tggagccgacttcctcacacgcgacgtaaacattgacgacagaaccgtcactcttcaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGGAACCAGAAAGAAGGCGCTGCTC 540 377 18 Antisense
AGAAGGCGCTGCTCAAAGTGATCAT 201 75 29 Antisense
GGCGCTGCTCAAAGTGATCATTCTC 287 543 33 Antisense
GCTGCTCAAAGTGATCATTCTCGGA 527 297 36 Antisense
CATTCTCGGAGATTCGGGCGTTGGA 398 215 51 Antisense
GGAGATTCGGGCGTTGGAAAAACAT 248 517 58 Antisense
AATCAATATGTAAATCGGCGATTTA 561 169 91 Antisense
GGCAACGATTGGAGCCGACTTCCTC 11 533 129 Antisense
ACTTCCTCACACGCGACGTAAACAT 37 103 146 Antisense
TCACACGCGACGTAAACATTGACGA 374 627 152 Antisense
GACGACAGAACCGTCACTCTTCAGA 401 379 172 Antisense
Sequence Source Affymetrix Proprietary Database