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[174198_at]

Description C36380_rc /REP_DB=TREMBL Accession /GB=C36380 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk451b9 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 94      6grp_high1_10_10 > 58      4grp_highest_8_8 > 35      4grp_high_8_8 > 48      6grp_highest_nonorm > 82      6grp_total > 48      4grp_total > 63      6grp_highest_sub > Cu      6grp_cgc > 18      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 264
1 2 3 4 range
A 510.8
(3)
P 		247
(-3)
P 		433.8
(1.2)
P 		297.7
(-1.8)
P 		264
B 434.3
(3)
P 		360.5
(-1.1)
P 		331.7
(-2.7)
P 		327.1
(-3)
P 		107
C 469.8
(3)
P 		351
(-1.3)
P 		419
(1.1)
P 		305.2
(-3)
P 		165
avr 471.6
(3) 		319.5
(-2.6) 		394.8
(0.1) 		310
(-3) 		162

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 352
1 2 3 4 5 6 range
A 360.3
(0.2)
P 		371.8
(0.5)
P 		247.3
(-2.1)
P 		204.8
(-3)
P 		404.1
(1.2)
P 		492
(3)
P 		287
B 521.4
(2.3)
P 		373.3
(-0.4)
P 		234.5
(-3)
P 		363.9
(-0.6)
P 		331.8
(-1.2)
P 		556.6
(3)
P 		322
C 461.3
(3)
P 		312.1
(-0.6)
P 		302.9
(-0.9)
P 		216
(-3)
P 		306.1
(-0.8)
P 		444.1
(2.6)
P 		245
avr 447.7
(1.7) 		352.4
(-0.7) 		261.6
(-3) 		261.6
(-3) 		347.3
(-0.8) 		497.6
(3) 		236
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 142
1 2 3 4 range
A 186
(3)
P 		53.6
(-2.6)
P 		113.4
(-0.1)
P 		43.6
(-3)
P 		142
B 138.5
(3)
P 		89
(-1.3)
P 		76.9
(-2.4)
P 		69.7
(-3)
P 		69
C 155.5
(3)
P 		100.9
(-0.1)
P 		146
(2.5)
P 		51.5
(-3)
P 		104
avr 160
(3) 		81.2
(-1.5) 		112.1
(0.3) 		54.9
(-3) 		105

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 164
1 2 3 4 5 6 range
A 66.4
(-1.9)
P 		132.2
(3)
P 		53.9
(-2.9)
P 		51.9
(-3)
P 		122
(2.2)
P 		119.8
(2.1)
P 		80
B 181.4
(2)
P 		124.2
(-0.3)
P 		56.9
(-3)
P 		96.4
(-1.4)
P 		134.8
(0.1)
P 		207.5
(3)
P 		151
C 171
(3)
P 		95.2
(-0.6)
P 		77.1
(-1.4)
P 		43.4
(-3)
P 		99
(-0.4)
P 		148.7
(2)
P 		128
avr 139.6
(1.8) 		117.2
(0.4) 		62.6
(-3) 		63.9
(-2.9) 		118.6
(0.5) 		158.7
(3) 		96
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174198_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21336
Sequence Type Exemplar sequence
Representative Public ID C36380 NCBI
Target Description C36380_rc /REP_DB=TREMBL Accession /GB=C36380 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk451b9 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_068878(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068878 NCBI Caenorhabditis elegans human HCF1 related family member (hcf-1) (hcf-1) mRNA, complete cds. 11/11 A 
C46A5.9 ENSEMBL cdna:known chromosome:CEL140:IV:7770738:7774253:-1 gene:C46A5.9 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
chrIV:7770826-7771116(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol hcf-1
Ensembl C46A5.9
Entrez Gene 177560 Entrez gene
SwissProt Q18654 EMBL-EBI
WormBase CE26914 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.29705.1.S1_AT similar to Host cell factor (HCF) (HCF-1) (C1 factor) (VP16 accessory protein) (VCAF) (CFF) cfa
CANINE_2:CFAAFFX.29705.1.S1_S_AT similar to Host cell factor (HCF) (HCF-1) (C1 factor) (VP16 accessory protein) (VCAF) (CFF) cfa
CANINE_2:CFAAFFX.29710.1.S1_AT similar to Host cell factor (HCF) (HCF-1) (C1 factor) (VP16 accessory protein) (VCAF) (CFF) cfa
HG-U133A:202474_S_AT host cell factor C1 (VP16-accessory protein) hs
HG-U133_PLUS_2:202474_S_AT host cell factor C1 (VP16-accessory protein) hs
HG-FOCUS:202474_S_AT host cell factor C1 (VP16-accessory protein) hs
HG-U133A_2:202474_S_AT host cell factor C1 (VP16-accessory protein) hs
HU35KSUBC:RC_AA259144_S_AT host cell factor C1 (VP16-accessory protein) hs
HU35KSUBD:RC_R85360_S_AT host cell factor C1 (VP16-accessory protein) hs
HUGENEFL:L20010_AT host cell factor C1 (VP16-accessory protein) hs
U133_X3P:G4885402_3P_A_AT host cell factor C1 (VP16-accessory protein) hs
U133_X3P:HS.83634.0.S1_3P_A_AT host cell factor C1 (VP16-accessory protein) hs
HG-U133A_2:202473_X_AT host cell factor C1 (VP16-accessory protein) hs
HG-U133_PLUS_2:202473_X_AT host cell factor C1 (VP16-accessory protein) hs
HG-U133A:202473_X_AT host cell factor C1 (VP16-accessory protein) hs
HG-U95AV2:37910_AT host cell factor C1 (VP16-accessory protein) hs
HG-U133_PLUS_2:231177_AT Host cell factor C1 (VP16-accessory protein) hs
HG-U133B:231177_AT Host cell factor C1 (VP16-accessory protein) hs
U133_X3P:HS.83634.1.A1_3P_AT Host cell factor C1 (VP16-accessory protein) hs
MOUSE430_2:1421972_S_AT host cell factor C1 mm
MOE430A:1421972_S_AT host cell factor C1 mm
MOUSE430A_2:1421972_S_AT host cell factor C1 mm
MU11KSUBB:MSA.2717.0_S_AT host cell factor C1 mm
MG-U74AV2:100901_AT host cell factor C1 mm
MG-U74AV2:100900_AT host cell factor C1 mm
MOE430A:1433736_AT host cell factor C1 mm
MOUSE430A_2:1433736_AT host cell factor C1 mm
MOUSE430_2:1433736_AT host cell factor C1 mm
MOE430A:1450439_AT host cell factor C1 mm
MOUSE430A_2:1450439_AT host cell factor C1 mm
MOUSE430_2:1450439_AT host cell factor C1 mm
MU19KSUBB:TC30650_AT Host cell factor C1 (Hcfc1), mRNA mm
MU19KSUBB:TC30650_G_AT Host cell factor C1 (Hcfc1), mRNA mm
RAE230A:1372530_AT Similar to HCF rn
RAT230_2:1372530_AT Similar to HCF rn
RG-U34B:RC_AA944190_AT Similar to HCF rn
Protein Similarities
Method ID Description E-Value
blast AAB03147 Human hcf1 related protein 1 [Caenorhabditis elegans] ref|NP_501279.1| human HCF1 related family member (hcf-1) [Caenorhabditis elegans] gb|AAD12580.1| host cell factor 1 [Caenorhabditis elegans] 0.0
blast CAE70878 Hypothetical protein CBG17668 [Caenorhabditis briggsae] 0.0
blast EAL39432 ENSANGP00000026655 [Anopheles gambiae str. PEST] ref|XP_554581.1| ENSANGP00000026655 [Anopheles gambiae str. PEST] 1.0E-162
Protein Domains
Database ID Description E-Value
Pfam IPR006652 EMBL-EBI Kelch repeat 2.4E-5
Pfam IPR006652 EMBL-EBI Kelch repeat 3.4E-5
Pfam IPR006652 EMBL-EBI Kelch repeat 3.5E-4
Sequence
Target Sequence 
>C. ELEGANS:174198_AT
cttcttccgctttcattacaatgtaatccgctttgtggtcatcctgaaaatggacaactg
gaaccagaaatttcttcacttttatatgcttttgagttgaacggatcaaatcattcacta
ccttttccaactttgccgccttaaataattgtcattttttgaataactattctccgaatt
cccttaaatcttttctgtactcttacaattactttttatgtgttgttcacaccgccaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTTCTTCCGCTTTCATTACAATGTA 576 221 27 Antisense
TAATCCGCTTTGTGGTCATCCTGAA 500 635 50 Antisense
ACTGGAACCAGAAATTTCTTCACTT 268 97 83 Antisense
TTCTTCACTTTTATATGCTTTTGAG 496 689 98 Antisense
GATCAAATCATTCACTACCTTTTCC 141 421 130 Antisense
TTCCAACTTTGCCGCCTTAAATAAT 486 701 151 Antisense
GAATAACTATTCTCCGAATTCCCTT 256 327 187 Antisense
TATTCTCCGAATTCCCTTAAATCTT 254 661 194 Antisense
CTTAAATCTTTTCTGTACTCTTACA 551 219 209 Antisense
GTACTCTTACAATTACTTTTTATGT 385 459 223 Antisense
TTTATGTGTTGTTCACACCGCCACA 192 675 241 Antisense
Sequence Source Affymetrix Proprietary Database