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[184501_at]

Description C52E12.5 /REP_DB=WormBase Gene ID /WP=CE06970 /TR=Q18781 /GB=AAA93456.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 0      4grp_total > 37      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 80
1 2 3 4 range
A 39.7
(1.1)
A 		56.1
(3)
A 		5
(-3)
A 		15.4
(-1.8)
A 		51
B 54.3
(0.9)
A 		68.9
(3)
A 		28.1
(-3)
A 		43.3
(-0.8)
A 		41
C 84.6
(3)
A 		57.2
(-0.5)
A 		37.3
(-3)
A 		57.6
(-0.4)
A 		47
avr 59.5
(2.8) 		60.7
(3) 		23.5
(-3) 		38.8
(-0.5) 		37

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 44
1 2 3 4 5 6 range
A 25.3
(0.3)
A 		23.9
(0.1)
A 		7.8
(-3)
A 		28.7
(1)
A 		39.4
(3)
A 		39.2
(3)
A 		32
B 32.1
(-1)
A 		48.9
(3)
A 		36.6
(0.1)
A 		41.2
(1.2)
A 		48.9
(3)
A 		23.6
(-3)
A 		25
C 5.4
(-3)
A 		33.8
(1.9)
A 		40
(3)
A 		6.2
(-2.9)
A 		19.3
(-0.6)
A 		22.9
(0)
A 		35
avr 20.9
(-3) 		35.5
(2.8) 		28.1
(-0.1) 		25.4
(-1.2) 		35.9
(3) 		28.6
(0.1) 		15
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 27
1 2 3 4 range
A 14.5
(3)
A 		12.2
(2)
A 		1.3
(-3)
A 		2.3
(-2.5)
A 		13
B 17.3
(3)
A 		17
(2.8)
A 		6.5
(-3)
A 		9.2
(-1.5)
A 		11
C 28
(3)
A 		16.5
(-0.8)
A 		13
(-1.9)
A 		9.7
(-3)
A 		18
avr 19.9
(3) 		15.2
(0.8) 		6.9
(-3) 		7.1
(-2.9) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 19
1 2 3 4 5 6 range
A 4.7
(-1.2)
A 		8.5
(1)
A 		1.7
(-3)
A 		7.3
(0.3)
A 		11.9
(3)
A 		9.5
(1.6)
A 		10
B 11.2
(-1.7)
A 		16.3
(1.1)
A 		8.9
(-2.9)
A 		10.9
(-1.9)
A 		19.8
(3)
A 		8.8
(-3)
A 		11
C 2
(-2.5)
A 		10.3
(3)
A 		10.2
(2.9)
A 		1.2
(-3)
A 		6.3
(0.4)
A 		7.7
(1.3)
A 		9
avr 6
(-3) 		11.7
(2.1) 		6.9
(-2.2) 		6.5
(-2.6) 		12.7
(3) 		8.7
(-0.6) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184501_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5641
Sequence Type Exemplar sequence
Representative Public ID C52E12.5 NCBI
Target Description C52E12.5 /REP_DB=WormBase Gene ID /WP=CE06970 /TR=Q18781 /GB=AAA93456.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_063036
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063036 NCBI Caenorhabditis elegans C52E12.4 (C52E12.4) mRNA, complete cds. A 
C52E12.4 ENSEMBL cdna:known chromosome:CEL140:II:7012733:7022440:-1 gene:C52E12.4 A 
SNAP00000036566 ENSEMBL cdna:SNAP chromosome:CEL140:II:7021530:7022440:-1 None
GENEFINDER00000036571 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:7015976:7022440:-1 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
F25B4.3 1/11 Cross Hyb Matching Probes None
Y60A3A.11 3/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:7020414-7022436(-) 50.59 100.0
Public Domain and Genome References
Gene Title
Ensembl C52E12.4
Entrez Gene 174146 Entrez gene
SwissProt Q18780 EMBL-EBI
WormBase CE31684 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1596981_AT similar to RAB6 interacting protein 1 cfa
CANINE_2:CFA.19640.1.S1_S_AT similar to RAB6 interacting protein 1 cfa
CANINE_2:CFAAFFX.11711.1.S1_S_AT similar to RAB6 interacting protein 1 cfa
DROSOPHILA_2:1623043_S_AT dm
DROSGENOME1:147985_AT dm
CHICKEN:GGAAFFX.26626.1.S1_AT similar to RAB6 interacting protein 1 gga
CHICKEN:GGAAFFX.26626.2.S1_S_AT similar to RAB6 interacting protein 1 gga
CHICKEN:GGAAFFX.3650.1.S1_S_AT similar to RAB6 interacting protein 1 gga
HU35KSUBA:RC_AA022884_AT RAB6 interacting protein 1 hs
HU35KSUBD:RC_AA349595_AT RAB6 interacting protein 1 hs
U133_X3P:HS.26797.0.S1_3P_AT RAB6 interacting protein 1 hs
HG-U133A_2:212561_AT RAB6 interacting protein 1 hs
HG-U133_PLUS_2:212561_AT RAB6 interacting protein 1 hs
HG-U133A:212561_AT RAB6 interacting protein 1 hs
HG-U95AV2:33924_AT RAB6 interacting protein 1 hs
HG-U95E:82391_AT RAB6 interacting protein 1 hs
MU11KSUBA:C79507_RC_F_AT Rab6 interacting protein 1 mm
MU11KSUBA:AA259973_S_AT Rab6 interacting protein 1 mm
MG-U74AV2:104108_AT Rab6 interacting protein 1 mm
MOE430A:1424015_AT Rab6 interacting protein 1 mm
MOUSE430A_2:1424015_AT Rab6 interacting protein 1 mm
MOUSE430_2:1424015_AT Rab6 interacting protein 1 mm
MU19KSUBC:TC41036_AT Rab6 interacting protein 1, mRNA (cDNA clone MGC:37737 IMAGE:5067385) mm
RAE230A:1373375_AT Rab6 interacting protein 1 (predicted) rn
RAT230_2:1373375_AT Rab6 interacting protein 1 (predicted) rn
RG-U34C:RC_AA819350_AT Rab6 interacting protein 1 (predicted) rn
RG-U34C:H31373_AT Rab6 interacting protein 1 (predicted) rn
RAE230B:1383038_AT Rab6 interacting protein 1 (predicted) rn
RAT230_2:1383038_AT Rab6 interacting protein 1 (predicted) rn
RG-U34C:RC_AI072148_AT Rab6 interacting protein 1 (predicted) rn
Protein Similarities
Method ID Description E-Value
blast AAA93455 Hypothetical protein C52E12.4 [Caenorhabditis elegans] ref|NP_495437.2| C52E12.4 [Caenorhabditis elegans] 0.0
blast CAE66012 Hypothetical protein CBG11204 [Caenorhabditis briggsae] 0.0
blast EAA05180 ENSANGP00000008188 [Anopheles gambiae str. PEST] ref|XP_309299.2| ENSANGP00000008188 [Anopheles gambiae str. PEST] 0.0
blast XP_420981 PREDICTED: similar to RAB6 interacting protein 1 [Gallus gallus] 1.0E-106
blast AAA93455 Hypothetical protein C52E12.4 [Caenorhabditis elegans] ref|NP_495437.2| C52E12.4 [Caenorhabditis elegans] 1.0E-96
Protein Domains
Database ID Description E-Value
Pfam IPR005112 EMBL-EBI dDENN domain 1.3E-31
Pfam IPR001194 EMBL-EBI DENN (AEX-3) domain 1.9E-43
Pfam IPR001024 EMBL-EBI Lipoxygenase, LH2 domain 6.0E-21
Pfam IPR004012 EMBL-EBI RUN domain 7.5E-23
Pfam IPR005112 EMBL-EBI dDENN domain 1.3E-31
Pfam IPR001194 EMBL-EBI DENN (AEX-3) domain 1.9E-43
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 4.3E-20
Sequence
Target Sequence 
>C. ELEGANS:184501_AT
caaagaatacatcatccaccgggaactgtttcagcctttgccgacgatctaaaattactc
ggatcggaccccacttctatccaaacaagcatcaatattgtcgctgattggtgtaaaaaa
tggcgtctaaatcttgctgagcaaaaaactgccgtattacactttggtaaaaagaacccc
cgtcataaatactttgtaaatagtgttgaaattaaaccgcgtaattctatcagagatctc
ggagtcattgtcgataccaaattatcatttgtaaatcatattaatcagacttctaatagt
gccctccttaagtgtcgccaaatccttcgctcattccgctccaaaagtcccgaattctat
tttaaactgttcaatgtttacatccgccccgtactcgaatatggctgcgagctcttcccg
cccaactccaccaaacttgccaaaaaaccagaatctcccctccggtttttctcaaacagc
aggctttcacaatttaatttattgtctactcaccacagacgggttcttcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAAAGAATACATCATCCACCGGGAA 310 191 484 Antisense
AATACATCATCCACCGGGAACTGTT 707 169 489 Antisense
ATCCACCGGGAACTGTTTCAGCCTT 344 37 497 Antisense
CACCGGGAACTGTTTCAGCCTTTGC 329 197 500 Antisense
TGCCGTATTACACTTTGGTAAAAAG 220 583 633 Antisense
CGCTCCAAAAGTCCCGAATTCTATT 330 255 820 Antisense
CCGGTTTTTCTCAAACAGCAGGCTT 597 259 945 Antisense
AACAGCAGGCTTTCACAATTTAATT 584 133 958 Antisense
TAATTTATTGTCTACTCACCACAGA 389 635 978 Antisense
TATTGTCTACTCACCACAGACGGGT 170 665 983 Antisense
TACTCACCACAGACGGGTTCTTCAA 174 647 990 Antisense
Sequence Source Affymetrix Proprietary Database