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[184005_at]

Description Y39A1A.4 /REP_DB=WormBase Gene ID /WP=CE19122 /TR=Q9XX24 /GB=CAA21016.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 34      4grp_high_8_8 > 20      6grp_total > 11      4grp_total > 20      6grp_cgc > 53      6grp_high1_sub > 02      6grp_cgc_sub > 02      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 98
1 2 3 4 range
A 55.2
(-1.3)
P 		71.4
(-0)
M 		34.7
(-3)
A 		108.6
(3)
P 		74
B 64.5
(-0.9)
P 		77.7
(0.8)
P 		47.3
(-3)
A 		95.9
(3)
P 		49
C 100.8
(1)
P 		39.9
(-3)
A 		45.7
(-2.6)
P 		132.3
(3)
P 		92
avr 73.5
(-0.3) 		63
(-1.2) 		42.6
(-3) 		112.3
(3) 		70

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 93
1 2 3 4 5 6 range
A 36.1
(-0.8)
A 		19.1
(-3)
A 		65.4
(3)
P 		44.4
(0.3)
A 		55.5
(1.7)
P 		29
(-1.7)
A 		46
B 70.3
(0.7)
P 		99.6
(3)
P 		33
(-2.1)
P 		60
(-0)
P 		21.6
(-3)
P 		37.6
(-1.8)
P 		78
C 46.2
(-0.5)
A 		100.6
(3)
P 		22.8
(-2)
A 		56.9
(0.2)
P 		8
(-3)
A 		46.8
(-0.5)
P 		93
avr 50.9
(0) 		73.1
(3) 		40.4
(-1.4) 		53.8
(0.4) 		28.4
(-3) 		37.8
(-1.7) 		45
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 24
1 2 3 4 range
A 20.1
(3)
P 		15.5
(0.5)
M 		9.1
(-3)
A 		15.9
(0.7)
P 		11
B 20.6
(3)
P 		19.2
(2.1)
P 		11
(-3)
A 		20.4
(2.9)
P 		10
C 33.4
(3)
P 		11.5
(-3)
A 		15.9
(-1.8)
P 		22.3
(-0)
P 		22
avr 24.7
(3) 		15.4
(-1.4) 		12
(-3) 		19.5
(0.5) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 31
1 2 3 4 5 6 range
A 6.7
(-3)
A 		6.8
(-2.9)
A 		14.3
(1.6)
P 		11.3
(-0.2)
A 		16.7
(3)
P 		7.1
(-2.8)
A 		10
B 24.5
(0.9)
P 		33.2
(3)
P 		8
(-3)
P 		15.9
(-1.1)
P 		8.8
(-2.8)
P 		14
(-1.6)
P 		25
C 17.1
(0.1)
A 		30.7
(3)
P 		5.8
(-2.3)
A 		11.4
(-1.1)
P 		2.6
(-3)
A 		15.7
(-0.2)
P 		28
avr 16.1
(-0.2) 		23.6
(3) 		9.4
(-3) 		12.9
(-1.5) 		9.4
(-3) 		12.3
(-1.8) 		14
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184005_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6936
Sequence Type Exemplar sequence
Representative Public ID Y39A1A.4 NCBI
Target Description Y39A1A.4 /REP_DB=WormBase Gene ID /WP=CE19122 /TR=Q9XX24 /GB=CAA21016.1 /SUBMIT=HINXTON /CHR=3 /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_066936(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066936 NCBI Caenorhabditis elegans RAB eXchange factor family member (rabx-5) (rabx-5) mRNA, complete cds. 9/11 A 
Y39A1A.5 ENSEMBL cdna:known chromosome:CEL140:III:10604253:10613046:1 gene:Y39A1A.5 9/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000012904 8/11 Cross Hyb Matching Probes None
GENEFINDER00000012933 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:10604248-10606520(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol rabx-5
Ensembl Y39A1A.5
Entrez Gene 176481 Entrez gene
SwissProt Q8I100 EMBL-EBI
WormBase CE32521 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.16844.1.S1_AT similar to Rab5 GDP/GTP exchange factor (Rabex-5) cfa
DROSOPHILA_2:1627265_AT dm
DROSGENOME1:141553_AT dm
CHICKEN:GGA.13271.1.S1_AT RAB guanine nucleotide exchange factor (GEF) 1 gga
CHICKEN:GGA.16681.1.S1_AT RAB guanine nucleotide exchange factor (GEF) 1 gga
CHICKEN:GGAAFFX.25548.1.S1_S_AT RAB guanine nucleotide exchange factor (GEF) 1 gga
HG-U133_PLUS_2:218310_AT RAB guanine nucleotide exchange factor (GEF) 1 hs
HG-U133A:218310_AT RAB guanine nucleotide exchange factor (GEF) 1 hs
HG-FOCUS:218310_AT RAB guanine nucleotide exchange factor (GEF) 1 hs
HG-U133A_2:218310_AT RAB guanine nucleotide exchange factor (GEF) 1 hs
HU35KSUBA:RC_AA448209_AT RAB guanine nucleotide exchange factor (GEF) 1 hs
HU35KSUBD:RC_AA400892_S_AT RAB guanine nucleotide exchange factor (GEF) 1 hs
U133_X3P:G7657495_3P_AT RAB guanine nucleotide exchange factor (GEF) 1 hs
HG-U95B:45273_AT RAB guanine nucleotide exchange factor (GEF) 1 hs
HU35KSUBD:RC_R53800_AT RAB guanine nucleotide exchange factor (GEF) 1 hs
HG-U95C:59951_AT RAB guanine nucleotide exchange factor (GEF) 1 hs
HG-U95C:55438_AT RAB guanine nucleotide exchange factor (GEF) 1 hs
HU35KSUBC:RC_AA283926_AT RAB guanine nucleotide exchange factor (GEF) 1 hs
MOUSE430_2:1419067_A_AT RAB guanine nucleotide exchange factor (GEF) 1 mm
MOE430A:1419067_A_AT RAB guanine nucleotide exchange factor (GEF) 1 mm
MOUSE430A_2:1419067_A_AT RAB guanine nucleotide exchange factor (GEF) 1 mm
MOE430A:1419069_AT RAB guanine nucleotide exchange factor (GEF) 1 mm
MOUSE430A_2:1419069_AT RAB guanine nucleotide exchange factor (GEF) 1 mm
MOUSE430_2:1419069_AT RAB guanine nucleotide exchange factor (GEF) 1 mm
MOE430A:1419068_AT RAB guanine nucleotide exchange factor (GEF) 1 mm
MOUSE430A_2:1419068_AT RAB guanine nucleotide exchange factor (GEF) 1 mm
MOUSE430_2:1419068_AT RAB guanine nucleotide exchange factor (GEF) 1 mm
RG-U34B:RC_AI043808_AT RAB guanine nucleotide exchange factor (GEF) 1 (predicted) rn
RAE230B:1384089_AT RAB guanine nucleotide exchange factor (GEF) 1 (predicted) rn
RAT230_2:1384089_AT RAB guanine nucleotide exchange factor (GEF) 1 (predicted) rn
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAD56609 Hypothetical protein Y39A1A.5 [Caenorhabditis elegans] ref|NP_499337.2| RAB eXchange factor family member (rabx-5) [Caenorhabditis elegans] 0.0
blast T26732 hypothetical protein Y39A1A.5a - Caenorhabditis elegans 0.0
blast T26727 hypothetical protein Y39A1A.4 - Caenorhabditis elegans 1.0E-64
Protein Domains
Database ID Description E-Value
Pfam IPR003123 EMBL-EBI Vacuolar sorting protein 9 1.7E-35
Pfam IPR002653 EMBL-EBI Zn-finger, A20-like 1.9E-7
Sequence
Target Sequence 
>C. ELEGANS:184005_AT
tgtattcgttctaacaattcccccagattgttttcaaacaccccacaaagtaatgtcaga
taagcatggcgaggaggacaagaaagcaaaaatgcatttaaaagctaatgatttattatg
tgtcaatggatgcggattctacgggaccccacagtgggagaatcgttgctcaaaatgttg
gagagctcatcagaatgagatgaaaaaatgtcaggattttgcgaagaatagatctcttct
aagtttcgatcaattccaagagcggcgtaaatcgacaacagaaagcaagtcacgtggcat
caaaaatctgtttaaaacgtctccgattccagaaggcggaaccagttcaccaacttccac
gtcaccggcgagcacaccaactcgttttgaggccgttgtctgcaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGTATTCGTTCTAACAATTCCCCCA 218 561 45 Antisense
CAAACACCCCACAAAGTAATGTCAG 395 191 79 Antisense
TTCTACGGGACCCCACAGTGGGAGA 326 689 181 Antisense
GAATAGATCTCTTCTAAGTTTCGAT 552 323 270 Antisense
AGTTTCGATCAATTCCAAGAGCGGC 418 63 286 Antisense
GAGCGGCGTAAATCGACAACAGAAA 74 383 304 Antisense
CAGAAAGCAAGTCACGTGGCATCAA 330 205 323 Antisense
AAACGTCTCCGATTCCAGAAGGCGG 316 123 359 Antisense
GAAGGCGGAACCAGTTCACCAACTT 71 331 376 Antisense
GAGCACACCAACTCGTTTTGAGGCC 620 389 414 Antisense
TCGTTTTGAGGCCGTTGTCTGCAAA 218 603 426 Antisense
Sequence Source Affymetrix Proprietary Database