[Home] | [Total List]

[185909_s_at]

Description Y62E10A.9 /REP_DB=WormBase Gene ID /WP=CE24543 /TR=Q9U1W9 /GB=CAB60605.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 12      6grp_high1_10_10 > 20      4grp_highest_8_8 > 23      4grp_high_8_8 > 05      6grp_highest_nonorm > 73      6grp_total > 50      4grp_total > 03      6grp_cgc > 94      6grp_cgc_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1905
1 2 3 4 range
A 609
(-3)
P 		796.5
(-2.3)
P 		632.5
(-2.9)
P 		2332.5
(3)
P 		1724
B 737.7
(-1.9)
P 		427.9
(-3)
P 		463.9
(-2.9)
P 		2079.5
(3)
P 		1652
C 931
(-1.6)
P 		663.7
(-2.8)
P 		624.4
(-3)
P 		1960.1
(3)
P 		1336
avr 759.2
(-2.3) 		629.4
(-2.8) 		573.6
(-3) 		2124
(3) 		1550

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 463
1 2 3 4 5 6 range
A 590.7
(-0)
P 		388.5
(-3)
P 		795.4
(3)
P 		588.5
(-0.1)
P 		461.2
(-1.9)
P 		489.7
(-1.5)
P 		407
B 644.5
(-1.2)
P 		715.1
(1)
P 		780.9
(3)
P 		691.7
(0.3)
P 		597.9
(-2.6)
P 		585
(-3)
P 		196
C 743.4
(2.5)
P 		732.3
(2.3)
P 		332
(-3)
P 		781.5
(3)
P 		423.2
(-1.8)
P 		606.1
(0.7)
P 		450
avr 659.5
(2.1) 		612
(0.7) 		636.1
(1.4) 		687.2
(3) 		494.1
(-3) 		560.3
(-0.9) 		193
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 337
1 2 3 4 range
A 221.8
(-1.1)
P 		172.9
(-2.7)
P 		165.4
(-3)
P 		341.4
(3)
P 		176
B 235.2
(-0.7)
P 		105.7
(-3)
P 		107.5
(-3)
P 		443.1
(3)
P 		337
C 308.2
(2)
P 		190.8
(-3)
P 		217.6
(-1.8)
P 		330.5
(3)
P 		140
avr 255.1
(-0.3) 		156.5
(-3) 		163.5
(-2.8) 		371.7
(3) 		215

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 191
1 2 3 4 5 6 range
A 108.9
(-3)
P 		138.2
(-0.3)
P 		173.2
(3)
P 		149.2
(0.8)
P 		139.2
(-0.2)
P 		119.2
(-2)
P 		64
B 224.3
(1.1)
P 		238
(2.5)
P 		189.6
(-2.4)
P 		183.2
(-3)
P 		242.9
(3)
P 		218.1
(0.5)
P 		60
C 275.5
(3)
P 		223.4
(1.4)
P 		84.5
(-3)
P 		157.2
(-0.7)
P 		136.9
(-1.4)
P 		202.9
(0.7)
P 		191
avr 202.9
(3) 		199.9
(2.7) 		149.1
(-3) 		163.2
(-1.4) 		173
(-0.3) 		180.1
(0.5) 		54
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 185909_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8425
Sequence Type Exemplar sequence
Representative Public ID Y62E10A.9 NCBI
Target Description Y62E10A.9 /REP_DB=WormBase Gene ID /WP=CE24543 /TR=Q9U1W9 /GB=CAB60605.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
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_070175(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070175 NCBI Caenorhabditis elegans RAB family member (rab-19) (rab-19) mRNA, complete cds. 11/11 A 
SNAP00000008078 ENSEMBL cdna:SNAP chromosome:CEL140:IV:13382112:13386057:-1 11/11 None
Y62E10A.9.2 ENSEMBL cdna:known chromosome:CEL140:IV:13382058:13386060:-1 gene:Y62E10A.9 11/11 A 
Y62E10A.9.1 ENSEMBL cdna:known chromosome:CEL140:IV:13382068:13386060:-1 gene:Y62E10A.9 11/11 A 
Y62E10A.9.3 ENSEMBL cdna:known chromosome:CEL140:IV:13382112:13383926:-1 gene:Y62E10A.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000008101 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:13382117-13383911(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol rab-19
Ensembl Y62E10A.9
Entrez Gene 178301 Entrez gene
SwissProt Q9U1W9 EMBL-EBI
WormBase CE24543 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1624118_AT Rab-related protein 3 dm
DROSGENOME1:143844_AT Rab-related protein 3 dm
CHICKEN:GGAAFFX.3126.1.S1_AT similar to Ras-related protein Rab gga
HG-U133B:229894_S_AT RAB43, member RAS oncogene family hs
HG-U133_PLUS_2:229894_S_AT RAB43, member RAS oncogene family hs
HU35KSUBA:RC_AA155803_AT RAB43, member RAS oncogene family hs
U133_X3P:HS.33122.4.S1_3P_A_AT RAB43, member RAS oncogene family hs
U133_X3P:HS.33122.3.A1_3P_A_AT RAB43, member RAS oncogene family hs
HG-U133_PLUS_2:225632_S_AT RAB43, member RAS oncogene family hs
HG-U133B:225632_S_AT RAB43, member RAS oncogene family hs
HG-U95C:65692_AT RAB43, member RAS oncogene family hs
HG-U95E:75006_AT RAB43, member RAS oncogene family hs
RAE230B:1394486_AT Ras-related protein RAB43 rn
RAT230_2:1394486_AT Ras-related protein RAB43 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
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
5525 GTP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB60605 Hypothetical protein Y62E10A.9 [Caenorhabditis elegans] ref|NP_502576.1| RAB family member (rab-19) [Caenorhabditis elegans] 1.0E-119
blast CAB60605 Hypothetical protein Y62E10A.9 [Caenorhabditis elegans] ref|NP_502576.1| RAB family member (rab-19) [Caenorhabditis elegans] 1.0E-118
blast CAE58611 Hypothetical protein CBG01778 [Caenorhabditis briggsae] 1.0E-111
blast CAE58611 Hypothetical protein CBG01778 [Caenorhabditis briggsae] 1.0E-110
Protein Domains
Database ID Description E-Value
Pfam IPR001806 EMBL-EBI Ras GTPase superfamily 2.0E-77
Pfam IPR001806 EMBL-EBI Ras GTPase superfamily 2.0E-77
Sequence
Target Sequence 
>C. ELEGANS:185909_S_AT
gcagctccgaatgttgtgaagctactcattggtacaaaatgcgatctagaagaccagaga
gcaatcgaagcagaagaagcggaaatgttgcaaagagctaatggaatgttcgcaatgctc
gagactagtgcaaaaggcaatgtgaacgtggacaacgcattcctcgagttagcaacaatt
ctgaagcgacagtatgatcaaggagtcgttgaacaaggctcaagtggtacattccagctt
ggatccggtggca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCAGCTCCGAATGTTGTGAAGCTAC 141 315 346 Antisense
GTGAAGCTACTCATTGGTACAAAAT 407 481 361 Antisense
GTACAAAATGCGATCTAGAAGACCA 223 461 377 Antisense
GAAGACCAGAGAGCAATCGAAGCAG 411 339 394 Antisense
GCTAATGGAATGTTCGCAATGCTCG 33 303 442 Antisense
GTTCGCAATGCTCGAGACTAGTGCA 494 441 453 Antisense
GGCAATGTGAACGTGGACAACGCAT 317 535 481 Antisense
GAGTTAGCAACAATTCTGAAGCGAC 97 399 511 Antisense
GAGTCGTTGAACAAGGCTCAAGTGG 239 401 548 Antisense
AGGCTCAAGTGGTACATTCCAGCTT 536 53 561 Antisense
ACATTCCAGCTTGGATCCGGTGGCA 138 105 574 Antisense
Sequence Source Affymetrix Proprietary Database