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[186112_at]

Description Y39A1A.5A /REP_DB=WormBase Gene ID /WP=CE19123 /TR=Q9XX19 /GB=CAA21021.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 56      4grp_highest_8_8 > 47      4grp_high_8_8 > 11      6grp_total > 47      4grp_total > 13      6grp_cgc > 27      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 167
1 2 3 4 range
A 203.3
(2.8)
P 		101.6
(-2.7)
P 		95.1
(-3)
P 		207.2
(3)
P 		112
B 167.9
(0.1)
P 		89.1
(-3)
P 		91.6
(-2.9)
P 		242.6
(3)
P 		154
C 143.6
(-0.4)
P 		99.8
(-2.1)
P 		75.3
(-3)
P 		231.6
(3)
P 		156
avr 171.6
(0.6) 		96.8
(-2.6) 		87.3
(-3) 		227.1
(3) 		140

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 135
1 2 3 4 5 6 range
A 136.2
(3)
P 		94.9
(-1.3)
P 		78.8
(-3)
P 		80.1
(-2.9)
M 		86.4
(-2.2)
P 		100.2
(-0.8)
P 		57
B 94.6
(-1.1)
P 		139.4
(1.2)
P 		61.3
(-2.7)
P 		66.8
(-2.4)
P 		55.5
(-3)
P 		176.3
(3)
P 		121
C 76.8
(-0.5)
P 		95.3
(0.7)
P 		122.2
(2.6)
P 		54.6
(-2.1)
A 		41.2
(-3)
P 		128
(3)
P 		87
avr 102.5
(0.4) 		109.9
(1) 		87.4
(-0.9) 		67.2
(-2.5) 		61
(-3) 		134.8
(3) 		74
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 53
1 2 3 4 range
A 74
(3)
P 		22.1
(-3)
P 		24.9
(-2.7)
P 		30.3
(-2.1)
P 		52
B 53.6
(3)
P 		22
(-2.9)
P 		21.2
(-3)
P 		51.7
(2.6)
P 		32
C 47.5
(3)
P 		28.7
(-2.3)
P 		26.2
(-3)
P 		39
(0.6)
P 		21
avr 58.4
(3) 		24.3
(-3) 		24.1
(-3) 		40.3
(-0.2) 		34

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 55
1 2 3 4 5 6 range
A 25.1
(-0.1)
P 		33.7
(3)
P 		17.2
(-3)
P 		20.3
(-1.9)
M 		26.1
(0.2)
P 		24.4
(-0.4)
P 		17
B 32.9
(-0.9)
P 		46.4
(0.7)
P 		14.9
(-3)
P 		17.7
(-2.7)
P 		22.5
(-2.1)
P 		65.7
(3)
P 		51
C 28.4
(0.3)
P 		29.1
(0.4)
P 		31.1
(0.8)
P 		11
(-3)
A 		13.3
(-2.6)
P 		42.8
(3)
P 		32
avr 28.8
(-0.3) 		36.4
(1.3) 		21.1
(-2) 		16.3
(-3) 		20.6
(-2.1) 		44.3
(3) 		28
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186112_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7035
Sequence Type Exemplar sequence
Representative Public ID Y39A1A.5A NCBI
Target Description Y39A1A.5A /REP_DB=WormBase Gene ID /WP=CE19123 /TR=Q9XX19 /GB=CAA21021.1 /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(11)
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. 11/11 A 
GENEFINDER00000012933 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:10605247:10612710:1 11/11 None
SNAP00000012905 ENSEMBL cdna:SNAP chromosome:CEL140:III:10609965:10612710:1 11/11 None
Y39A1A.5 ENSEMBL cdna:known chromosome:CEL140:III:10604253:10613046:1 gene:Y39A1A.5 11/11 A 
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
chrIII:10609960-10614758(+) 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 CAD56609 Hypothetical protein Y39A1A.5 [Caenorhabditis elegans] ref|NP_499337.2| RAB eXchange factor family member (rabx-5) [Caenorhabditis elegans] 1.0E-109
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
Pfam IPR003123 EMBL-EBI Vacuolar sorting protein 9 9.0E-23
Pfam IPR002653 EMBL-EBI Zn-finger, A20-like 1.9E-7
Pfam IPR003123 EMBL-EBI Vacuolar sorting protein 9 1.7E-35
Sequence
Target Sequence 
>C. ELEGANS:186112_AT
ggcgggaagtctcgcgaaaaacttgacgaatatgcatggaaaatctgatgatgatctcga
aaaaatgctcgcggtgatcaaggagactgtcgatttctacccgactgatgaatatatgaa
catgaaacaatctattttcgccgaagaaaaagaaactgccgatattctcgtatcactgtc
ccgtcaatcatctgaatctggtcgtggaactcttacagacactcaaccatcaactccaca
acctgatacatctctagaatctcccctaattgcagagattcaagcaattaatctgacttc
ttctggaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGCGGGAAGTCTCGCGAAAAACTTG 542 399 972 Antisense
AATGCTCGCGGTGATCAAGGAGACT 321 165 1035 Antisense
GACTGTCGATTTCTACCCGACTGAT 36 377 1056 Antisense
AACTGCCGATATTCTCGTATCACTG 1 143 1125 Antisense
ACTGTCCCGTCAATCATCTGAATCT 573 95 1146 Antisense
TGAATCTGGTCGTGGAACTCTTACA 14 575 1164 Antisense
AACTCTTACAGACACTCAACCATCA 187 141 1179 Antisense
TCAACTCCACAACCTGATACATCTC 417 631 1201 Antisense
TGATACATCTCTAGAATCTCCCCTA 401 565 1215 Antisense
CTCTAGAATCTCCCCTAATTGCAGA 251 229 1223 Antisense
GCAATTAATCTGACTTCTTCTGGAA 173 323 1255 Antisense
Sequence Source Affymetrix Proprietary Database