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[187368_at]

Description F54F2.9 /REP_DB=WormBase Gene ID /WP=CE00202 /TR=SW:P34454 /GB=AAK26135.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 82      6grp_high1_10_10 > 38      4grp_highest_8_8 > 26      4grp_high_8_8 > 59      6grp_highest_nonorm > 90      6grp_total > 38      4grp_total > 60      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 74
1 2 3 4 range
A 95.4
(-3)
P 		128.9
(3)
P 		99.8
(-2.2)
P 		119.4
(1.3)
P 		34
B 151.7
(3)
P 		130.6
(1.1)
P 		141
(2)
P 		85.8
(-3)
P 		66
C 150
(1.9)
P 		114.4
(-1.9)
P 		160.2
(3)
P 		104.4
(-3)
P 		56
avr 132.4
(2.7) 		124.6
(1.2) 		133.7
(3) 		103.2
(-3) 		31

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 87
1 2 3 4 5 6 range
A 161
(3)
P 		109.9
(-1.1)
P 		105.1
(-1.5)
P 		86.2
(-3)
P 		91.6
(-2.6)
P 		106.8
(-1.3)
P 		75
B 173.5
(3)
P 		104.5
(-3)
P 		131.5
(-0.7)
P 		118.3
(-1.8)
P 		130
(-0.8)
P 		121.8
(-1.5)
P 		69
C 108.9
(-1.3)
P 		116.1
(-0.7)
P 		87.5
(-3)
P 		89.8
(-2.8)
P 		117.7
(-0.6)
P 		161.5
(3)
P 		74
avr 147.8
(3) 		110.2
(-1.5) 		108
(-1.8) 		98.1
(-3) 		113.1
(-1.2) 		130
(0.9) 		50
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 38
1 2 3 4 range
A 34.7
(3)
P 		28
(0.7)
P 		26.1
(0)
P 		17.5
(-3)
P 		17
B 48.4
(3)
P 		32.3
(-0.2)
P 		32.7
(-0.1)
P 		18.3
(-3)
P 		30
C 49.7
(2)
P 		32.9
(-0.6)
P 		55.9
(3)
P 		17.6
(-3)
P 		38
avr 44.3
(3) 		31.1
(0) 		38.2
(1.6) 		17.8
(-3) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 42
1 2 3 4 5 6 range
A 29.7
(-0.3)
P 		39.1
(3)
P 		22.9
(-2.7)
P 		21.9
(-3)
P 		27.6
(-1)
P 		26
(-1.6)
P 		17
B 60.4
(3)
P 		34.8
(-2.3)
P 		31.9
(-2.9)
P 		31.3
(-3)
P 		52.8
(1.4)
P 		45.4
(-0.1)
P 		29
C 40.4
(0.7)
P 		35.4
(-0.1)
P 		22.3
(-2.3)
P 		18.1
(-3)
P 		38.1
(0.3)
P 		54.1
(3)
P 		36
avr 43.5
(3) 		36.4
(0.8) 		25.7
(-2.4) 		23.8
(-3) 		39.5
(1.8) 		41.8
(2.5) 		20
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187368_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7210
Sequence Type Exemplar sequence
Representative Public ID F54F2.9 NCBI
Target Description F54F2.9 /REP_DB=WormBase Gene ID /WP=CE00202 /TR=SW:P34454 /GB=AAK26135.1 /SUBMIT=ST.LOUIS /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_066548(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066548 NCBI Caenorhabditis elegans F54F2.9 (F54F2.9) mRNA, complete cds. 11/11 None
SNAP00000044292 ENSEMBL cdna:SNAP chromosome:CEL140:III:8825257:8826363:-1 11/11 None
GENEFINDER00000044296 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:8825257:8826363:-1 11/11 None
F54F2.9 ENSEMBL cdna:known chromosome:CEL140:III:8825145:8826287:-1 gene:F54F2.9 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:8825252-8826283(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F54F2.9
Entrez Gene 176241 Entrez gene
SwissProt P34454 EMBL-EBI
WormBase CE00202 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1588215_AT similar to DnaJ (Hsp40) homolog, subfamily C, member 1 cfa
CANINE_2:CFA.14652.1.A1_AT similar to DnaJ (Hsp40) homolog, subfamily C, member 1 cfa
CANINE_2:CFA.14652.1.A1_S_AT similar to DnaJ (Hsp40) homolog, subfamily C, member 1 cfa
CANINE_2:CFAAFFX.7150.1.S1_AT similar to DnaJ (Hsp40) homolog, subfamily C, member 1 cfa
DROSOPHILA_2:1626507_AT dm
DROSGENOME1:152106_AT dm
HG-U95C:62726_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
HU35KSUBB:RC_W42483_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
HU35KSUBC:RC_AA102520_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
HG-U133A:218409_S_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
HG-U133_PLUS_2:218409_S_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
HG-FOCUS:218409_S_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
HG-U133A_2:218409_S_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
U133_X3P:G11641286_3P_A_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
U133_X3P:HS.13015.0.S1_3P_A_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
HG-U133_PLUS_2:222620_S_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
HG-U133B:222620_S_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
HG-U133_PLUS_2:222621_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
HG-U133B:222621_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
HG-U95B:53799_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
HG-U133_PLUS_2:242216_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
HG-U133B:242216_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
HG-U95B:44417_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
HG-U95E:68142_R_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
HG-U95E:87583_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
HU35KSUBB:RC_H52704_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
U133_X3P:HS.227513.0.A1_3P_AT DnaJ (Hsp40) homolog, subfamily C, member 1 hs
MOE430B:1459791_AT DnaJ (Hsp40) homolog, subfamily C, member 1 mm
MOUSE430_2:1459791_AT DnaJ (Hsp40) homolog, subfamily C, member 1 mm
MG-U74AV2:103344_AT DnaJ (Hsp40) homolog, subfamily C, member 1 mm
MU11KSUBA:L16953_S_AT DnaJ (Hsp40) homolog, subfamily C, member 1 mm
MG-U74BV2:116370_AT DnaJ (Hsp40) homolog, subfamily C, member 1 mm
MOE430A:1420500_AT DnaJ (Hsp40) homolog, subfamily C, member 1 mm
MOUSE430A_2:1420500_AT DnaJ (Hsp40) homolog, subfamily C, member 1 mm
MOUSE430_2:1420500_AT DnaJ (Hsp40) homolog, subfamily C, member 1 mm
MOE430A:1420501_AT DnaJ (Hsp40) homolog, subfamily C, member 1 mm
MOUSE430A_2:1420501_AT DnaJ (Hsp40) homolog, subfamily C, member 1 mm
MOUSE430_2:1420501_AT DnaJ (Hsp40) homolog, subfamily C, member 1 mm
MOE430B:1447649_X_AT DnaJ (Hsp40) homolog, subfamily C, member 1 mm
MOUSE430_2:1447649_X_AT DnaJ (Hsp40) homolog, subfamily C, member 1 mm
MOE430B:1453372_AT DnaJ (Hsp40) homolog, subfamily C, member 1 mm
MOUSE430_2:1453372_AT DnaJ (Hsp40) homolog, subfamily C, member 1 mm
MOE430B:1440551_AT DnaJ (Hsp40) homolog, subfamily C, member 1 (Dnajc1), mRNA mm
MOUSE430_2:1440551_AT DnaJ (Hsp40) homolog, subfamily C, member 1 (Dnajc1), mRNA mm
MU19KSUBA:TC19382_S_AT DnaJ (Hsp40) homolog, subfamily C, member 1 (Dnajc1), mRNA mm
MU19KSUBC:TC35412_AT DnaJ (Hsp40) homolog, subfamily C, member 1 (Dnajc1), mRNA mm
RAE230A:1376079_AT DnaJ (Hsp40) homolog, subfamily C, member 1 (predicted) rn
RAT230_2:1376079_AT DnaJ (Hsp40) homolog, subfamily C, member 1 (predicted) rn
RAE230B:1380476_AT DnaJ (Hsp40) homolog, subfamily C, member 1 (predicted) rn
RAT230_2:1380476_AT DnaJ (Hsp40) homolog, subfamily C, member 1 (predicted) rn
RAE230A:1392388_AT DnaJ (Hsp40) homolog, subfamily C, member 1 (predicted) rn
RAT230_2:1392388_AT DnaJ (Hsp40) homolog, subfamily C, member 1 (predicted) rn
RT-U34:RC_AA893711_AT DnaJ (Hsp40) homolog, subfamily C, member 1 (predicted) rn
RG-U34A:RC_AA893711_AT DnaJ (Hsp40) homolog, subfamily C, member 1 (predicted) rn
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK26135 Hypothetical protein F54F2.9 [Caenorhabditis elegans] 1.0E-143
blast AAK26135 Hypothetical protein F54F2.9 [Caenorhabditis elegans] 1.0E-128
blast NP_498949 F54F2.9 [Caenorhabditis elegans] sp|P34454|YMA9_CAEEL Hypothetical protein F54F2.9 in chromosome III 1.0E-128
blast CAE62739 Hypothetical protein CBG06902 [Caenorhabditis briggsae] 1.0E-127
Protein Domains
Database ID Description E-Value
Pfam IPR001005 EMBL-EBI Myb DNA-binding domain 3.8E-10
Pfam IPR001005 EMBL-EBI Myb DNA-binding domain 3.8E-10
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000044292 1 7-29
GENEFINDER00000044296 1 7-29
Sequence
Target Sequence 
>C. ELEGANS:187368_AT
actgctaaagatgctatgacacctaaagaagttgaacctgaagaaccaacagaagaggag
ttggctcaacagagaaggcaacaaagagcagcagcggcaccccagcaactagagtttaaa
tttgaagtggctcaaggtatgaaagcagtttccacaaatgatcctgagatggagaaaaag
tatgcagcagaaaatgaagttgtagcacagaaacaatctggagcaacatggacgcctgat
gaattagctagtctggttcgactgagcactgaaaaatacccggctggaacaccgaatcgt
tgggaacaaatgggtcgagttttgaatagaagtgcagaagacgttattgcaatggctgga
aaaatgaaacagatgaagcaagaggattatacgaaattgttgatgacaactattcaacaa
tcagtaccagttgaagagaaatcagaagatgattggagtcaagctgagcagaaggctttt
gaaaccgcattgcag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACTGCTAAAGATGCTATGACACCTA 174 97 211 Antisense
GCAACAAAGAGCAGCAGCGGCACCC 292 319 288 Antisense
GGCACCCCAGCAACTAGAGTTTAAA 89 537 306 Antisense
GAAAGCAGTTTCCACAAATGATCCT 669 359 351 Antisense
ATCTGGAGCAACATGGACGCCTGAT 169 35 426 Antisense
ACGCCTGATGAATTAGCTAGTCTGG 160 91 442 Antisense
GCTAGTCTGGTTCGACTGAGCACTG 575 301 457 Antisense
GACTGAGCACTGAAAAATACCCGGC 599 375 470 Antisense
ATACCCGGCTGGAACACCGAATCGT 354 23 486 Antisense
GAAGACGTTATTGCAATGGCTGGAA 226 339 547 Antisense
GAAGGCTTTTGAAACCGCATTGCAG 489 333 681 Antisense
Sequence Source Affymetrix Proprietary Database