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[184648_at]

Description F35F11.1 /REP_DB=WormBase Gene ID /WP=CE24942 /TR=Q9N5U5 /GB=AAF39795.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 96      6grp_high1_10_10 > 79      4grp_highest_8_8 > 29      4grp_high_8_8 > 07      6grp_highest_nonorm > 82      6grp_total > 69      4grp_total > 06      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 158
1 2 3 4 range
A 515.3
(2.8)
P 		444.8
(-1.2)
P 		412.2
(-3)
P 		519.7
(3)
P 		108
B 447.2
(-0.9)
P 		421.4
(-3)
P 		496.9
(3)
P 		474.3
(1.2)
P 		76
C 493.6
(-2.7)
P 		489.7
(-3)
P 		553.7
(1.8)
P 		570.2
(3)
P 		81
avr 485.4
(-0.1) 		452
(-3) 		487.6
(0.1) 		521.4
(3) 		69

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 429
1 2 3 4 5 6 range
A 346.8
(-1.8)
P 		445.1
(-0.4)
P 		268.4
(-3)
P 		383.4
(-1.3)
P 		352.3
(-1.7)
P 		670.1
(3)
P 		402
B 338.4
(-0.9)
P 		254.5
(-2.7)
P 		351
(-0.6)
P 		241.3
(-3)
P 		439.2
(1.4)
P 		513.9
(3)
P 		273
C 491
(2.3)
P 		298.4
(-2.8)
P 		383.4
(-0.6)
P 		291.8
(-3)
P 		456
(1.4)
P 		517.4
(3)
P 		226
avr 392.1
(-1) 		332.7
(-2.4) 		334.3
(-2.3) 		305.5
(-3) 		415.8
(-0.5) 		567.1
(3) 		262
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 117
1 2 3 4 range
A 187.6
(3)
P 		96.6
(-1.9)
P 		107.8
(-1.3)
P 		76.1
(-3)
P 		112
B 142.6
(3)
P 		104.1
(-2.6)
P 		115.1
(-1)
P 		101.1
(-3)
P 		42
C 163.4
(1.2)
P 		140.8
(-0.2)
P 		193
(3)
P 		96.2
(-3)
P 		97
avr 164.5
(3) 		113.8
(-1.1) 		138.6
(0.9) 		91.1
(-3) 		73

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 133
1 2 3 4 5 6 range
A 63.9
(-2.7)
P 		158.3
(2.7)
P 		58.5
(-3)
P 		97.2
(-0.8)
P 		106.3
(-0.3)
P 		163.1
(3)
P 		105
B 117.8
(-0.5)
P 		84.7
(-2)
P 		85.2
(-2)
P 		63.9
(-3)
P 		178.4
(2.4)
P 		191.6
(3)
P 		128
C 182
(3)
P 		91
(-1.4)
P 		97.6
(-1.1)
P 		58.7
(-3)
P 		147.6
(1.3)
P 		173.2
(2.6)
P 		123
avr 121.2
(-0.2) 		111.3
(-0.8) 		80.4
(-2.6) 		73.3
(-3) 		144.1
(1.1) 		176
(3) 		103
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184648_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10412
Sequence Type Exemplar sequence
Representative Public ID F35F11.1 NCBI
Target Description F35F11.1 /REP_DB=WormBase Gene ID /WP=CE24942 /TR=Q9N5U5 /GB=AAF39795.1 /SUBMIT=ST.LOUIS /CHR=4 /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_068064(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068064 NCBI Caenorhabditis elegans F35F11.1 (F35F11.1) mRNA, complete cds. 11/11 None
SNAP00000034669 ENSEMBL cdna:SNAP chromosome:CEL140:IV:4042572:4047482:1 11/11 None
GENEFINDER00000034675 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:4042572:4047482:1 11/11 None
F35F11.1.2 ENSEMBL cdna:known chromosome:CEL140:IV:4042562:4047513:1 gene:F35F11.1 11/11 None
F35F11.1.1 ENSEMBL cdna:known chromosome:CEL140:IV:4042568:4047779:1 gene:F35F11.1 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
chrIV:4042577-4047488(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F35F11.1
Entrez Gene 177160 Entrez gene
SwissProt Q9N5U5 EMBL-EBI
WormBase CE37230 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:256928_AT RNA pol II accessory factor Cdc73 family protein at
CANINE_2:CFA.19601.1.S1_S_AT similar to hyperparathyroidism 2 homolog cfa
CANINE_2:CFA.19601.2.A1_AT similar to hyperparathyroidism 2 homolog cfa
CANINE_2:CFAAFFX.16477.1.S1_AT similar to hyperparathyroidism 2 homolog cfa
DROSOPHILA_2:1634550_AT dm
DROSGENOME1:141288_AT dm
CHICKEN:GGA.8974.1.S1_S_AT cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) gga
CHICKEN:GGAAFFX.1652.1.S1_S_AT cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) gga
CHICKEN:GGAAFFX.1653.1.S1_AT cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) gga
HG-U133_PLUS_2:218578_AT cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U133A:218578_AT cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U133A_2:218578_AT cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HU35KSUBA:RC_AA157568_AT cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
U133_X3P:G13375677_3P_AT cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U95B:53141_AT cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U95AV2:36421_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U133_PLUS_2:215398_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U133A_2:215398_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U133A:215398_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
U133_X3P:HS.302182.0.S1_3P_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U133A_2:222320_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U133_PLUS_2:222320_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U133A:222320_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U133_PLUS_2:229828_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U133B:229828_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U133_PLUS_2:235196_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U133B:235196_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U133_PLUS_2:242166_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U133B:242166_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U95B:44568_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U95B:52744_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U95B:55485_R_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U95E:72467_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HG-U95D:76971_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HU35KSUBD:RC_AA446658_I_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HU35KSUBC:RC_N66769_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
U133_X3P:HS.31383.0.A1_3P_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
HU35KSUBA:RC_AA156718_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
U133_X3P:HS.126574.0.A1_3P_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
U133_X3P:HS.95663.0.A1_3P_AT Cell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) hs
MU11KSUBA:C81219_RC_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MG-U74AV2:96570_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MG-U74BV2:117131_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MOE430A:1439103_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MOUSE430A_2:1439103_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MOUSE430_2:1439103_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MOE430A:1427973_S_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MOUSE430A_2:1427973_S_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MOUSE430_2:1427973_S_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MOE430A:1427971_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MOUSE430A_2:1427971_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MOUSE430_2:1427971_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MOE430A:1427972_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MOUSE430A_2:1427972_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MOUSE430_2:1427972_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MOE430B:1429940_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MOUSE430_2:1429940_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MOE430B:1443986_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MOUSE430_2:1443986_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MOE430B:1446983_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MOUSE430_2:1446983_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) mm
MU19KSUBA:TC23374_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) (Cdc73), mRNA mm
MU19KSUBB:TC34616_AT Vcell division cycle 73, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) (Cdc73), mRNA mm
RG-U34B:RC_AI013310_AT hyperparathyroidism 2 (with jaw tumor) (predicted) rn
RAE230B:1379346_AT hyperparathyroidism 2 (with jaw tumor) (predicted) rn
RAT230_2:1379346_AT hyperparathyroidism 2 (with jaw tumor) (predicted) rn
Protein Similarities
Method ID Description E-Value
blast AAF39795 Hypothetical protein F35F11.1 [Caenorhabditis elegans] ref|NP_500465.3| F35F11.1 [Caenorhabditis elegans] 0.0
blast CAE75039 Hypothetical protein CBG22949 [Caenorhabditis briggsae] 1.0E-175
blast CAE75039 Hypothetical protein CBG22949 [Caenorhabditis briggsae] 1.0E-173
blast CAE75039 Hypothetical protein CBG22949 [Caenorhabditis briggsae] 1.0E-169
Protein Domains
Database ID Description E-Value
Pfam IPR007852 EMBL-EBI RNA pol II accessory factor, Cdc73 1.0E-126
Pfam IPR007852 EMBL-EBI RNA pol II accessory factor, Cdc73 1.0E-126
Pfam IPR007852 EMBL-EBI RNA pol II accessory factor, Cdc73 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:184648_AT
tcatcatcgttccgtcggcaatgaatacgatgataaatttgtacaatgttcgagatattc
tgcagaatttcagctatgttcctgttgatcagcgacgaaaagagacgaataagaagcctg
tcgatttggctattcaacggcagaaaaatggtgttacttctaaaaattcgaaaaaaaaac
aaaaactccattttaacctaaaatttgaaattgattcagacaatatccgcgtaatcgaca
atgccgagaagcttgccaatgatgattgggatcgtgtgatcgccgtcttcgtaatgggtg
tcgcgtggcaattcaaaggctggaaatggaatggaaatccgacggacatcttcacccaca
ttcctgcattccatttccacgtcgaccaggataagccggtggctcaagtgatgcagtgga
atgtacacaagattccagtctcggcgacgaaacggcacatgga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCATCATCGTTCCGTCGGCAATGAA 9 621 1187 Antisense
GCTATGTTCCTGTTGATCAGCGACG 662 303 1259 Antisense
AATATCCGCGTAATCGACAATGCCG 413 171 1408 Antisense
GATTGGGATCGTGTGATCGCCGTCT 285 435 1450 Antisense
GATCGCCGTCTTCGTAATGGGTGTC 330 415 1464 Antisense
TAATGGGTGTCGCGTGGCAATTCAA 169 599 1478 Antisense
GGAAATCCGACGGACATCTTCACCC 537 527 1519 Antisense
TCCATTTCCACGTCGACCAGGATAA 378 591 1556 Antisense
AAGCCGGTGGCTCAAGTGATGCAGT 390 149 1579 Antisense
TACACAAGATTCCAGTCTCGGCGAC 20 643 1610 Antisense
TCTCGGCGACGAAACGGCACATGGA 22 611 1625 Antisense
Sequence Source Affymetrix Proprietary Database