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[182821_s_at]

Description R02D3.3 /REP_DB=WormBase Gene ID /WP=CE18097 /TR=O44499 /GB=AAB94149.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 56      6grp_high1_10_10 > 65      4grp_highest_8_8 > 53      4grp_high_8_8 > 17      6grp_highest_nonorm > 74      6grp_total > 65      4grp_total > 31      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 574
1 2 3 4 range
A 842.6
(3)
P 		490.9
(-2.9)
P 		487.2
(-3)
P 		713.8
(0.8)
P 		355
B 989.4
(3)
P 		415.6
(-3)
P 		421.6
(-2.9)
P 		777.1
(0.8)
P 		574
C 824.6
(3)
P 		447.5
(-2.7)
P 		430.7
(-3)
P 		624.3
(-0.1)
P 		394
avr 885.5
(3) 		451.3
(-2.9) 		446.5
(-3) 		705.1
(0.5) 		439

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 372
1 2 3 4 5 6 range
A 693.8
(-0.7)
P 		708.7
(-0.4)
P 		638
(-1.8)
P 		681.3
(-1)
P 		579.6
(-3)
P 		882.2
(3)
P 		303
B 679.3
(-0.1)
P 		617.9
(-1.8)
P 		797.6
(3)
P 		692.8
(0.2)
P 		570.7
(-3)
P 		692.1
(0.2)
P 		227
C 590.3
(-1.3)
P 		656.6
(0.1)
P 		719.7
(1.5)
P 		790.7
(3)
P 		510.7
(-3)
P 		784.2
(2.9)
P 		280
avr 654.5
(-0.4) 		661.1
(-0.2) 		718.4
(1.3) 		721.6
(1.3) 		553.7
(-3) 		786.2
(3) 		233
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 218
1 2 3 4 range
A 306.8
(3)
P 		106.6
(-2.9)
P 		127.4
(-2.3)
P 		104.5
(-3)
P 		202
B 315.5
(3)
P 		102.6
(-2.9)
P 		97.7
(-3)
P 		165.6
(-1.1)
P 		218
C 273
(3)
P 		128.6
(-2.2)
P 		150.1
(-1.4)
P 		105.3
(-3)
P 		168
avr 298.4
(3) 		112.6
(-3) 		125.1
(-2.6) 		125.1
(-2.6) 		186

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 135
1 2 3 4 5 6 range
A 127.9
(-3)
P 		252.1
(3)
P 		138.9
(-2.5)
P 		172.8
(-0.8)
P 		174.9
(-0.7)
P 		214.8
(1.2)
P 		124
B 236.4
(1.3)
P 		205.7
(-1.2)
P 		193.7
(-2.2)
P 		183.5
(-3)
P 		231.9
(0.9)
P 		258.1
(3)
P 		75
C 218.8
(0.5)
P 		200.3
(-0.6)
P 		183.2
(-1.6)
P 		159
(-3)
P 		165.3
(-2.6)
P 		262.5
(3)
P 		104
avr 194.4
(-1.2) 		219.4
(0.9) 		171.9
(-3) 		171.8
(-3) 		190.7
(-1.5) 		245.1
(3) 		73
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 182821_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11073
Sequence Type Exemplar sequence
Representative Public ID R02D3.3 NCBI
Target Description R02D3.3 /REP_DB=WormBase Gene ID /WP=CE18097 /TR=O44499 /GB=AAB94149.1 /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_067479(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067479 NCBI Caenorhabditis elegans R02D3.3 (R02D3.3) mRNA, complete cds. 10/11 None
SNAP00000011010 ENSEMBL cdna:SNAP chromosome:CEL140:IV:225481:228244:-1 10/11 None
GENEFINDER00000011022 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:225481:231773:-1 10/11 None
R02D3.3.1 ENSEMBL cdna:known chromosome:CEL140:IV:225453:231773:-1 gene:R02D3.3 10/11 None
R02D3.3.2 ENSEMBL cdna:known chromosome:CEL140:IV:225464:231774:-1 gene:R02D3.3 10/11 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:225480-231773(-) 96.02 96.02
Public Domain and Genome References
Gene Title
Ensembl R02D3.3
Entrez Gene 176838 Entrez gene
SwissProt O44499 EMBL-EBI
WormBase CE36601 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:264563_S_AT transcription factor-related at
ATGENOME1:14769_AT transcription factor-related at
CANINE_2:CFA.18901.1.S1_S_AT similar to TFIIH basal transcription factor complex p62 subunit (Basic transcription factor 62 kDa subunit) (BTF2-p62) (General transcription factor IIH polypeptide 1) cfa
CANINE_2:CFAAFFX.14484.1.S1_AT similar to TFIIH basal transcription factor complex p62 subunit (Basic transcription factor 62 kDa subunit) (BTF2-p62) (General transcription factor IIH polypeptide 1) cfa
DROSOPHILA_2:1638499_S_AT dm
DROSGENOME1:141595_AT dm
CHICKEN:GGA.3871.1.S1_AT similar to 62 kDa subunit of TFIIH gga
HG-U133_PLUS_2:202453_S_AT general transcription factor IIH, polypeptide 1, 62kDa hs
HG-U133A:202453_S_AT general transcription factor IIH, polypeptide 1, 62kDa hs
HG-U133A_2:202453_S_AT general transcription factor IIH, polypeptide 1, 62kDa hs
HG-U133_PLUS_2:202451_AT general transcription factor IIH, polypeptide 1, 62kDa hs
HG-U133A:202451_AT general transcription factor IIH, polypeptide 1, 62kDa hs
HG-FOCUS:202451_AT general transcription factor IIH, polypeptide 1, 62kDa hs
HG-U133A_2:202451_AT general transcription factor IIH, polypeptide 1, 62kDa hs
HG-U95AV2:38782_AT general transcription factor IIH, polypeptide 1, 62kDa hs
HUGENEFL:M95809_AT general transcription factor IIH, polypeptide 1, 62kDa hs
U133_X3P:G4885364_3P_A_AT general transcription factor IIH, polypeptide 1, 62kDa hs
U133_X3P:G12653194_3P_AT general transcription factor IIH, polypeptide 1, 62kDa hs
HG-U95D:85940_AT general transcription factor IIH, polypeptide 1, 62kDa hs
HG-U95B:51405_AT General transcription factor IIH, polypeptide 1, 62kDa hs
HG-U95C:66116_AT General transcription factor IIH, polypeptide 1, 62kDa hs
HU35KSUBB:RC_N66842_AT General transcription factor IIH, polypeptide 1, 62kDa hs
MU11KSUBA:AJ002366_G_AT general transcription factor II H, polypeptide 1 mm
MU11KSUBA:AJ002366_AT general transcription factor II H, polypeptide 1 mm
MU11KSUBB:MSA.35938.0_S_AT general transcription factor II H, polypeptide 1 mm
MU11KSUBB:MSA.21250.0_S_AT general transcription factor II H, polypeptide 1 mm
MU11KSUBB:MSA.19893.0_AT general transcription factor II H, polypeptide 1 mm
MG-U74AV2:94811_S_AT general transcription factor II H, polypeptide 1 mm
MG-U74AV2:94812_AT general transcription factor II H, polypeptide 1 mm
MOE430A:1453169_A_AT general transcription factor II H, polypeptide 1 mm
MOUSE430A_2:1453169_A_AT general transcription factor II H, polypeptide 1 mm
MOUSE430_2:1453169_A_AT general transcription factor II H, polypeptide 1 mm
MU19KSUBA:TC23383_AT General transcription factor II H, polypeptide 1 (Gtf2h1), mRNA mm
MU19KSUBC:TC35660_I_AT General transcription factor II H, polypeptide 1 (Gtf2h1), mRNA mm
MU19KSUBC:TC36414_AT General transcription factor II H, polypeptide 1 (Gtf2h1), mRNA mm
RG-U34B:RC_AI059759_AT general transcription factor II H, polypeptide 1 (predicted) rn
RG-U34C:RC_AI229307_AT general transcription factor II H, polypeptide 1 (predicted) rn
RAE230A:1373094_AT general transcription factor II H, polypeptide 1 (predicted) rn
RAT230_2:1373094_AT general transcription factor II H, polypeptide 1 (predicted) rn
RAE230B:1397557_AT general transcription factor II H, polypeptide 1 (predicted) rn
RAT230_2:1397557_AT general transcription factor II H, polypeptide 1 (predicted) rn
RG-U34B:RC_AA849847_AT General transcription factor II H, polypeptide 1 (predicted) rn
Protein Similarities
Method ID Description E-Value
blast AAB94149 Hypothetical protein R02D3.3 [Caenorhabditis elegans] ref|NP_499880.3| R02D3.3 [Caenorhabditis elegans] 0.0
blast CAE58517 Hypothetical protein CBG01668 [Caenorhabditis briggsae] 0.0
blast CAE58517 Hypothetical protein CBG01668 [Caenorhabditis briggsae] 1.0E-162
blast AAB94149 Hypothetical protein R02D3.3 [Caenorhabditis elegans] ref|NP_499880.3| R02D3.3 [Caenorhabditis elegans] 1.0E-115
blast CAE58517 Hypothetical protein CBG01668 [Caenorhabditis briggsae] 4.0E-75
Protein Domains
Database ID Description E-Value
Pfam IPR005607 EMBL-EBI BSD 1.1E-13
Pfam IPR005607 EMBL-EBI BSD 5.7E-17
Pfam IPR005607 EMBL-EBI BSD 1.1E-13
Pfam IPR005607 EMBL-EBI BSD 3.0E-14
Sequence
Target Sequence 
>C. ELEGANS:182821_S_AT
gctccgcccacttaatggaagtttgtggcaattgtttttcttcataaaaacatttttcag
actggttgccgaaaccgagacccgcctggaatctgaagatctcgccacaaaagaagctga
agatgaagttcaaatagtccgaatcagttcatcagcaaaagcatcacaagccaagtattc
aaagccagatatgacaagatacaaggctctagtgacagattatttccaaaatagttcagt
tgaagatattcttcatcgaaatgaaatgcttttggatcaacaagaaatggagacttggga
aatggaagaagctatggaaacggataataatgaagttccaccaccagagaattggtgtca
aagtgctggggatttggcaaaagttcgagatgttcacagtgcggttcgtgagatttgccg
acaattctggaagtcattcccaccgatcgacaaggcttcagaggaaaagctcaatcgaat
ggctggcacattgagcaaatatcgagatgatattagaaacagtgatatcagtaaggagaa
tctcacacattgtattcaaatgattgatctcgccgtggacaagttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTCCGCCCACTTAATGGAAGTTTG 274 287 1233 Antisense
AGACCCGCCTGGAATCTGAAGATCT 164 69 1310 Antisense
GAATCTGAAGATCTCGCCACAAAAG 167 329 1321 Antisense
ATAGTCCGAATCAGTTCATCAGCAA 548 21 1366 Antisense
AAAGCATCACAAGCCAAGTATTCAA 548 123 1390 Antisense
CGAGATGTTCACAGTGCGGTTCGTG 151 251 1618 Antisense
GCGGTTCGTGAGATTTGCCGACAAT 663 287 1633 Antisense
ATTCTGGAAGTCATTCCCACCGATC 706 9 1656 Antisense
CCACCGATCGACAAGGCTTCAGAGG 500 273 1672 Antisense
AAGCTCAATCGAATGGCTGGCACAT 215 151 1699 Antisense
GATTGATCTCGCCGTGGACAAGTTT 561 433 1794 Antisense
Sequence Source Affymetrix Proprietary Database