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[187218_at]

Description R07E5.13 /REP_DB=WormBase Gene ID /WP=CE00659 /TR=SW:Q21828 /GB=CAA83622.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 25      6grp_high1_10_10 > 52      4grp_highest_8_8 > 25      4grp_high_8_8 > 59      6grp_highest_nonorm > 34      6grp_total > 52      4grp_total > 60      6grp_highest_sub > 03      6grp_high1_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1822
1 2 3 4 range
A 1823.1
(0.4)
P 		1975.3
(1.1)
P 		2448.4
(3)
P 		978.9
(-3)
P 		1470
B 2223.9
(2)
P 		1864.5
(0.8)
P 		2535.3
(3)
P 		723.6
(-3)
P 		1812
C 1894.3
(1.2)
P 		1965.4
(1.5)
P 		2401.5
(3)
P 		713.2
(-3)
P 		1688
avr 1980.4
(1.3) 		1935.1
(1.1) 		2461.7
(3) 		805.2
(-3) 		1657

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3027
1 2 3 4 5 6 range
A 1565.8
(-2.1)
P 		2395.5
(-0.4)
P 		4056.1
(3)
P 		2301.3
(-0.6)
P 		1509.8
(-2.2)
P 		1106
(-3)
P 		2950
B 1029.3
(-3)
P 		2257.3
(0)
P 		3483.2
(3)
P 		2157.9
(-0.2)
P 		1780.8
(-1.2)
P 		1249.1
(-2.5)
P 		2454
C 1293.9
(-2.8)
P 		2773.6
(0.8)
P 		3691
(3)
P 		2641.5
(0.5)
P 		1603.6
(-2)
P 		1203.2
(-3)
P 		2488
avr 1296.3
(-2.7) 		2475.5
(0) 		3743.4
(3) 		2366.9
(-0.2) 		1631.4
(-2) 		1186.1
(-3) 		2557
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 717
1 2 3 4 range
A 663.8
(3)
P 		428.8
(0.3)
P 		640.1
(2.7)
P 		143.3
(-3)
P 		521
B 709.2
(3)
P 		460.5
(0.3)
P 		587.5
(1.7)
P 		154.2
(-3)
P 		555
C 627.1
(1.2)
P 		565.1
(0.7)
P 		837
(3)
P 		120.3
(-3)
P 		717
avr 666.7
(2.8) 		484.8
(0.8) 		688.2
(3) 		139.3
(-3) 		549

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 670
1 2 3 4 5 6 range
A 288.6
(-2.8)
P 		852
(2.7)
P 		883.3
(3)
P 		583.7
(0.1)
P 		455.6
(-1.2)
P 		269.3
(-3)
P 		614
B 358.1
(-3)
P 		751.4
(1.8)
P 		845.8
(3)
P 		571.6
(-0.4)
P 		723.5
(1.5)
P 		465.8
(-1.7)
P 		488
C 479.6
(-2.1)
P 		846.3
(2)
P 		939.4
(3)
P 		531.2
(-1.6)
P 		518.9
(-1.7)
P 		402.8
(-3)
P 		537
avr 375.4
(-3) 		816.6
(2.1) 		889.5
(3) 		562.2
(-0.8) 		566
(-0.8) 		379.3
(-3) 		514
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187218_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7399
Sequence Type Exemplar sequence
Representative Public ID R07E5.13 NCBI
Target Description R07E5.13 /REP_DB=WormBase Gene ID /WP=CE00659 /TR=SW:Q21828 /GB=CAA83622.1 /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_065493(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065493 NCBI Caenorhabditis elegans R07E5.13 (R07E5.13) mRNA, complete cds. 11/11 None
SNAP00000012852 ENSEMBL cdna:SNAP chromosome:CEL140:III:4413426:4414605:1 9/11 None
GENEFINDER00000012862 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:4413426:4414605:1 9/11 None
R07E5.13 ENSEMBL cdna:known chromosome:CEL140:III:4413426:4414723:1 gene:R07E5.13 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
chrIII:4413425-4414723(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R07E5.13
Entrez Gene 259500 Entrez gene
SwissProt Q21828 EMBL-EBI
WormBase CE00659 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1583264_AT similar to Brain protein 44-like protein cfa
CANINE_2:CFA.11093.1.S1_AT similar to Brain protein 44-like protein cfa
CANINE_2:CFAAFFX.227.1.S1_AT similar to Brain protein 44-like protein cfa
CANINE_2:CFAAFFX.227.1.S1_S_AT similar to Brain protein 44-like protein cfa
DROSOPHILA_2:1633597_AT dm
DROSGENOME1:152291_AT dm
HU35KSUBA:RC_AA459690_S_AT brain protein 44-like hs
HG-U133A:218024_AT brain protein 44-like hs
HG-U133_PLUS_2:218024_AT brain protein 44-like hs
HG-FOCUS:218024_AT brain protein 44-like hs
HG-U133A_2:218024_AT brain protein 44-like hs
U133_X3P:G7706368_3P_AT brain protein 44-like hs
HG-U95C:48833_AT brain protein 44-like hs
HG-U133_PLUS_2:240362_AT Brain protein 44-like hs
HG-U133B:240362_AT Brain protein 44-like hs
HG-U95B:48632_R_AT Brain protein 44-like hs
HG-U95E:73582_AT Brain protein 44-like hs
HU35KSUBB:RC_N52382_AT Brain protein 44-like hs
U133_X3P:HS.117963.0.A1_3P_AT Brain protein 44-like hs
MOUSE430_2:1453651_A_AT brain protein 44-like mm
MOUSE430A_2:1453651_A_AT brain protein 44-like mm
MOE430A:1453651_A_AT brain protein 44-like mm
MG-U74BV2:164429_F_AT brain protein 44-like mm
MU19KSUBC:TC36940_S_AT Brain protein 44-like, mRNA (cDNA clone MGC:35947 IMAGE:4988147) mm
MU11KSUBB:W13278_S_AT Brain protein 44-like, mRNA (cDNA clone MGC:35947 IMAGE:4988147) mm
RT-U34:U47315_S_AT brain protein 44-like rn
RG-U34A:U47315_S_AT brain protein 44-like rn
RG-U34C:RC_AI172414_AT brain protein 44-like rn
RAE230A:1386867_AT brain protein 44-like rn
RAT230_2:1386867_AT brain protein 44-like rn
Protein Similarities
Method ID Description E-Value
blast CAA83622 Hypothetical protein R07E5.13 [Caenorhabditis elegans] ref|NP_497894.1| R07E5.13 [Caenorhabditis elegans] sp|Q21828|YNFD_CAEEL Hypothetical UPF0041 protein R07E5.13 in chromosome III 8.0E-83
blast CAA83622 Hypothetical protein R07E5.13 [Caenorhabditis elegans] ref|NP_497894.1| R07E5.13 [Caenorhabditis elegans] sp|Q21828|YNFD_CAEEL Hypothetical UPF0041 protein R07E5.13 in chromosome III 2.0E-75
blast CAE71208 Hypothetical protein CBG18071 [Caenorhabditis briggsae] 1.0E-73
blast CAE71208 Hypothetical protein CBG18071 [Caenorhabditis briggsae] 2.0E-72
blast EAA01075 ENSANGP00000015797 [Anopheles gambiae str. PEST] ref|XP_321716.2| ENSANGP00000015797 [Anopheles gambiae str. PEST] 9.0E-31
Protein Domains
Database ID Description E-Value
Pfam IPR005336 EMBL-EBI Protein of unknown function UPF0041 2.6E-84
Pfam IPR005336 EMBL-EBI Protein of unknown function UPF0041 6.1E-83
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_497894.1 2 20-42,52-74
R07E5.13 2 20-42,52-74
SNAP00000012852 2 20-42,52-74
GENEFINDER00000012862 2 20-42,52-74
Sequence
Target Sequence 
>C. ELEGANS:187218_AT
tggctaactggggacttccgttggctgctcttggagatttgaagaaaaatcctgacatga
tcagtggaccaatgacgtcagctcttctgatctactcgagtgttttcatgagattcgcgt
ggcacgttcaaccacgaaatcttttgctcttcgcttgccattttgccaacttcagtgctc
aaggagctcagctcggtcgatttgtgaaccacaactatctgcactacgttgaagatcccg
tccaccataaattgatgatgaaaaaggaggttttggagcacgaacacgatgcggaacggg
tttcgctctttttatggtatcctttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGGCTAACTGGGGACTTCCGTTGGC 50 545 110 Antisense
AGTGGACCAATGACGTCAGCTCTTC 644 57 172 Antisense
TCAGCTCTTCTGATCTACTCGAGTG 390 623 187 Antisense
GAGATTCGCGTGGCACGTTCAACCA 612 395 219 Antisense
ACGAAATCTTTTGCTCTTCGCTTGC 111 93 243 Antisense
TTGCCATTTTGCCAACTTCAGTGCT 74 703 264 Antisense
GAGCTCAGCTCGGTCGATTTGTGAA 93 389 293 Antisense
GAACCACAACTATCTGCACTACGTT 648 345 315 Antisense
AAGATCCCGTCCACCATAAATTGAT 48 155 341 Antisense
GATGCGGAACGGGTTTCGCTCTTTT 612 405 397 Antisense
TTCGCTCTTTTTATGGTATCCTTTT 564 697 411 Antisense
Sequence Source Affymetrix Proprietary Database