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[174361_at] transcriptional regulatory protein (RPD3)

Description C35179_rc /REP_DB=TREMBL Accession /GB=C35179 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk426a8 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 81      6grp_high1_10_10 > 29      4grp_highest_8_8 > 0      4grp_high_8_8 > 36      6grp_highest_nonorm > 70      6grp_total > 29      4grp_total > 43      6grp_highest_sub > Cu      6grp_high1_sub > Cu      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 398
1 2 3 4 range
A 316.4
(-1.7)
P 		627.2
(3)
P 		345
(-1.3)
P 		229
(-3)
P 		398
B 299.7
(-3)
P 		515
(3)
P 		372.2
(-1)
P 		413.8
(0.2)
P 		215
C 375.6
(-0.2)
P 		477.1
(3)
P 		381.6
(0)
P 		284.4
(-3)
P 		193
avr 330.6
(-2.4) 		539.8
(3) 		366.3
(-1.5) 		309.1
(-3) 		231

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 254
1 2 3 4 5 6 range
A 389.7
(3)
P 		365.4
(2.3)
P 		184.6
(-3)
P 		245
(-1.2)
P 		349.7
(1.8)
P 		321.2
(1)
P 		205
B 374.6
(3)
P 		368.8
(2.8)
P 		279.9
(-1)
P 		231.9
(-3)
P 		290.6
(-0.5)
P 		283.4
(-0.8)
P 		143
C 438.8
(3)
P 		279.6
(-1.2)
P 		224.6
(-2.6)
P 		209.4
(-3)
P 		361.5
(1)
P 		323.8
(-0)
P 		229
avr 401
(3) 		337.9
(0.8) 		229.7
(-3) 		228.8
(-3) 		333.9
(0.7) 		309.5
(-0.2) 		172
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 104
1 2 3 4 range
A 115.2
(1.8)
P 		136.1
(3)
P 		90.2
(0.3)
P 		33.5
(-3)
P 		103
B 95.6
(-1.6)
P 		127.2
(3)
P 		86.3
(-3)
P 		88.2
(-2.7)
P 		41
C 124.3
(2.1)
P 		137.2
(3)
P 		133
(2.7)
P 		48
(-3)
P 		89
avr 111.7
(1.3) 		133.5
(3) 		103.2
(0.6) 		56.6
(-3) 		77

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 123
1 2 3 4 5 6 range
A 71.8
(-0.9)
P 		130
(3)
P 		40.2
(-3)
P 		62.1
(-1.5)
P 		105.5
(1.4)
P 		78.2
(-0.5)
P 		90
B 130.3
(3)
P 		122.8
(2.3)
P 		68
(-2.4)
P 		61.4
(-3)
P 		118.1
(1.9)
P 		105.7
(0.9)
P 		69
C 162.7
(3)
P 		85.3
(-0.9)
P 		57.2
(-2.2)
P 		42.1
(-3)
P 		117
(0.7)
P 		108.4
(0.3)
P 		121
avr 121.6
(3) 		112.7
(2.2) 		55.1
(-3) 		55.2
(-3) 		113.5
(2.3) 		97.4
(0.8) 		67
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174361_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20562
Sequence Type Exemplar sequence
Representative Public ID C35179 NCBI
Target Description C35179_rc /REP_DB=TREMBL Accession /GB=C35179 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk426a8 : 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_064118(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064118 NCBI Caenorhabditis elegans F43G6.4 (F43G6.4) mRNA, complete cds. 11/11 None
F43G6.4 ENSEMBL cdna:known chromosome:CEL140:II:11790664:11797152:1 gene:F43G6.4 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
chrII:11796845-11797139(+) 100.0 100.0
Public Domain and Genome References
Gene Title transcriptional regulatory protein (RPD3)
Ensembl F43G6.4
Entrez Gene 174810 Entrez gene
SwissProt Q20373 EMBL-EBI
WormBase CE31700 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6118 electron transport inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5489 electron transporter activity inferred from electronic annotation QuickGO AmiGO
20037 heme binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA90401 Hypothetical protein F43G6.4 [Caenorhabditis elegans] ref|NP_496519.2| F43G6.4 [Caenorhabditis elegans] 1.0E-150
blast CAE59696 Hypothetical protein CBG03124 [Caenorhabditis briggsae] 1.0E-103
Sequence
Target Sequence 
>C. ELEGANS:174361_AT
gagtgtctaatataatctgtgccatttctcgttccaaaaaagaaaaaaacacgactccaa
ccacacatttcatcagggtacttctattgcatacagcttttaatgaaaatatatttatta
cttacattctctttttttctagaatctttcatcccttccttcccaaaaaaaccacgcaaa
atacctagtcttctcattttctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGTGTCTAATATAATCTGTGCCAT 517 401 23 Antisense
ATATAATCTGTGCCATTTCTCGTTC 59 21 32 Antisense
TGTGCCATTTCTCGTTCCAAAAAAG 690 555 40 Antisense
ACTCCAACCACACATTTCATCAGGG 171 97 76 Antisense
CACACATTTCATCAGGGTACTTCTA 610 193 84 Antisense
AGGGTACTTCTATTGCATACAGCTT 114 59 97 Antisense
ACTTCTATTGCATACAGCTTTTAAT 559 103 102 Antisense
TATTTATTACTTACATTCTCTTTTT 634 661 134 Antisense
TTTTTCTAGAATCTTTCATCCCTTC 481 675 156 Antisense
ACCACGCAAAATACCTAGTCTTCTC 412 83 193 Antisense
AAATACCTAGTCTTCTCATTTTCTC 142 117 201 Antisense
Sequence Source Affymetrix Proprietary Database