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[173327_at]

Description AV198886_rc /REP_DB=TREMBL Accession /GB=AV198886 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk382h9 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 19      6grp_high1_10_10 > 91      4grp_highest_8_8 > 38      4grp_high_8_8 > 03      6grp_highest_nonorm > 65      6grp_total > 93      4grp_total > 06      6grp_highest_sub > 05      6grp_high1_sub > 05      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2686
1 2 3 4 range
A 1550.9
(0.9)
P 		434.1
(-3)
P 		889
(-1.4)
P 		2161.3
(3)
P 		1727
B 1674.1
(3)
P 		594
(-3)
P 		633.4
(-2.8)
P 		1141
(0)
P 		1080
C 1149.3
(-1.5)
P 		463.2
(-3)
P 		833.1
(-2.2)
P 		3119.6
(3)
P 		2656
avr 1458.1
(0.5) 		497.1
(-3) 		785.2
(-1.9) 		2140.6
(3) 		1644

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1315
1 2 3 4 5 6 range
A 699.9
(-2.6)
P 		722.9
(-2.5)
P 		633.6
(-3)
P 		1139
(-0.2)
P 		1700.7
(3)
P 		1037.5
(-0.7)
P 		1067
B 1065.7
(0.6)
P 		578.1
(-2)
P 		385.7
(-3)
P 		1534.5
(3)
P 		1235.3
(1.4)
P 		1140.9
(0.9)
P 		1149
C 1539.6
(3)
P 		951.3
(-0.2)
P 		1228.4
(1.3)
P 		761.3
(-1.3)
P 		1448.7
(2.5)
P 		446.1
(-3)
P 		1094
avr 1101.7
(-0) 		750.8
(-3) 		749.2
(-3) 		1144.9
(0.3) 		1461.6
(3) 		874.8
(-1.9) 		712
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 471
1 2 3 4 range
A 564.7
(3)
P 		94.2
(-3)
P 		232.4
(-1.2)
P 		316.4
(-0.2)
P 		471
B 533.9
(3)
P 		146.7
(-3)
P 		146.8
(-3)
P 		243.2
(-1.5)
P 		387
C 380.5
(0.8)
P 		133.2
(-3)
P 		290.4
(-0.6)
P 		526
(3)
P 		393
avr 493
(3) 		124.7
(-3) 		223.2
(-1.4) 		361.9
(0.9) 		368

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 477
1 2 3 4 5 6 range
A 129
(-3)
P 		257.1
(-1)
P 		138
(-2.9)
P 		288.9
(-0.5)
P 		513.2
(3)
P 		252.6
(-1.1)
P 		384
B 370.8
(1.1)
P 		192.4
(-1.5)
P 		93.7
(-3)
P 		406.4
(1.6)
P 		501.9
(3)
P 		425.5
(1.9)
P 		408
C 570.7
(3)
P 		290.3
(-1)
P 		312.7
(-0.7)
P 		153.1
(-2.9)
P 		468.8
(1.5)
P 		149.3
(-3)
P 		421
avr 356.8
(0.4) 		246.6
(-1.8) 		181.5
(-3) 		282.8
(-1.1) 		494.6
(3) 		275.8
(-1.2) 		313
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173327_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27912
Sequence Type Exemplar sequence
Representative Public ID AV198886 NCBI
Target Description AV198886_rc /REP_DB=TREMBL Accession /GB=AV198886 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk382h9 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_065402
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065402 NCBI Caenorhabditis elegans C36E8.1 (C36E8.1) mRNA, complete cds. None
C36E8.1.2 ENSEMBL cdna:known chromosome:CEL140:III:3999272:4004089:-1 gene:C36E8.1 None
C36E8.1.1 ENSEMBL cdna:known chromosome:CEL140:III:3999272:4004118:-1 gene:C36E8.1 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:3999334-3999560(-) 67.42 72.58
Public Domain and Genome References
Gene Title
Ensembl C36E8.1
Entrez Gene 175517 Entrez gene
SwissProt P48322 EMBL-EBI
WormBase CE00909 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:12613_AT RNA polymerase I specific transcription initiation factor RRN3 family protein at
ATH1-121501:267312_AT RNA polymerase I specific transcription initiation factor RRN3 family protein at
CANINE_2:CFAAFFX.28690.1.S1_AT similar to RRN3 RNA polymerase I transcription factor homolog cfa
DROSOPHILA_2:1638591_AT dm
DROSGENOME1:153698_AT dm
DROSGENOME1:146623_AT dm
DROSGENOME1:146622_AT dm
CHICKEN:GGA.17331.1.S1_S_AT similar to RRN3 gga
CHICKEN:GGA.3121.1.S1_A_AT similar to RRN3 gga
CHICKEN:GGA.4903.1.S1_AT similar to RRN3 gga
HG-U133_PLUS_2:216902_S_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HG-U133A_2:216902_S_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HG-FOCUS:216902_S_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HG-U133A:216902_S_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HU35KSUBA:AA242915_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HU35KSUBA:RC_AA040149_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HU35KSUBA:RC_AA598711_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HU35KSUBA:HUM_ALU_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HU35KSUBB:HUM_ALU_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HU35KSUBC:HUM_ALU_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HU35KSUBD:HUM_ALU_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HUGENEFL:HUM_ALU_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HC-G110:HUM_ALU_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HU35KSUBD:RC_W86482_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
U133_X3P:HS.189834.0.S1_3P_S_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
U133_X3P:HS.110103.3.A1_3P_A_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
U133_X3P:HS.110103.2.A1_3P_S_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
U133_X3P:HS.110103.1.S1_3P_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HG-U133A_2:222204_S_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HG-U133_PLUS_2:222204_S_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HG-U133A:222204_S_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HG-U133_PLUS_2:230328_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HG-U133B:230328_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HG-U95AV2:39820_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HG-U95B:49184_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HG-U95C:65518_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
HG-U95D:74687_AT RRN3 RNA polymerase I transcription factor homolog (yeast) hs
MU11KSUBA:AA466709_S_AT RRN3 RNA polymerase I transcription factor homolog (yeast) mm
MG-U74AV2:96781_AT RRN3 RNA polymerase I transcription factor homolog (yeast) mm
MG-U74CV2:133314_AT RRN3 RNA polymerase I transcription factor homolog (yeast) mm
MOE430A:1415725_AT RRN3 RNA polymerase I transcription factor homolog (yeast) mm
MOE430B:1415725_AT RRN3 RNA polymerase I transcription factor homolog (yeast) mm
MOUSE430A_2:1415725_AT RRN3 RNA polymerase I transcription factor homolog (yeast) mm
MOUSE430_2:1415725_AT RRN3 RNA polymerase I transcription factor homolog (yeast) mm
MU19KSUBB:TC29982_AT RRN3 RNA polymerase I transcription factor homolog (yeast) mm
MOUSE430_2:1425765_AT RRN3 RNA polymerase I transcription factor homolog (yeast), mRNA (cDNA clone IMAGE:4504751) mm
MOE430A:1425765_AT RRN3 RNA polymerase I transcription factor homolog (yeast), mRNA (cDNA clone IMAGE:4504751) mm
MOUSE430A_2:1425765_AT RRN3 RNA polymerase I transcription factor homolog (yeast), mRNA (cDNA clone IMAGE:4504751) mm
MOUSE430_2:1425766_X_AT RRN3 RNA polymerase I transcription factor homolog (yeast), mRNA (cDNA clone IMAGE:4504751) mm
MOE430A:1425766_X_AT RRN3 RNA polymerase I transcription factor homolog (yeast), mRNA (cDNA clone IMAGE:4504751) mm
MOUSE430A_2:1425766_X_AT RRN3 RNA polymerase I transcription factor homolog (yeast), mRNA (cDNA clone IMAGE:4504751) mm
MG-U74BV2:109486_AT RRN3 RNA polymerase I transcription factor homolog (yeast), mRNA (cDNA clone IMAGE:4504751) mm
MU19KSUBC:TC35741_AT RRN3 RNA polymerase I transcription factor homolog (yeast), mRNA (cDNA clone IMAGE:4504751) mm
RG-U34A:RC_AA894101_AT similar to AL023001 protein (predicted) rn
RAE230B:1380022_AT similar to AL023001 protein (predicted) rn
RAT230_2:1380022_AT similar to AL023001 protein (predicted) rn
YEAST_2:1770213_AT Protein required for transcription of rDNA by RNA polymerase I; transcription factor independent of DNA template; involved in recruitment of RNA polymerase I to rDNA Sc
Protein Similarities
Method ID Description E-Value
blast CAA84645 Hypothetical protein C36E8.1 [Caenorhabditis elegans] ref|NP_497803.1| C36E8.1 [Caenorhabditis elegans] sp|P48322|YPJ1_CAEEL Hypothetical protein C36E8.1 in chromosome III 0.0
blast CAE60101 Hypothetical protein CBG03634 [Caenorhabditis briggsae] 0.0
blast AAF57260 CG3278-PA [Drosophila melanogaster] ref|NP_788084.1| CG3278-PA [Drosophila melanogaster] gb|AAL28671.1| LD10456p [Drosophila melanogaster] 4.0E-30
Protein Domains
Database ID Description E-Value
Pfam IPR007991 EMBL-EBI RNA polymerase I specific transcription initiation factor RRN3 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:173327_AT
taatggttgggtggtgattttctccaagttttcnttcgnnnnnnnaatggattttcttga
gatacttttgtcgttgatttacctcattaaattgnantanantaannnnnnnnnnnnnnn
nnnnnnnnnnnnnnnacttttacgcgnnnnnnttgtagaaacttccccngtaaacttccg
tagtcattttccccgannnnnnncttgaatgtcattctccattctctgctccagtcttat
cttagtttcaattgttta

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TAATGGTTGGGTGGTGATTTTCTCC 176 629 35 Antisense
TGGGTGGTGATTTTCTCCAAGTTTT 205 553 42 Antisense
GGATTTTCTTGAGATACTTTTGTCG 147 509 83 Antisense
GATACTTTTGTCGTTGATTTACCTC 11 425 95 Antisense
TTTTGTCGTTGATTTACCTCATTAA 463 677 100 Antisense
GTCGTTGATTTACCTCATTAAATTG 607 473 104 Antisense
TGAATGTCATTCTCCATTCTCTGCT 608 575 240 Antisense
TTCTCTGCTCCAGTCTTATCTTAGT 472 691 256 Antisense
TCTGCTCCAGTCTTATCTTAGTTTC 481 609 259 Antisense
GCTCCAGTCTTATCTTAGTTTCAAT 49 299 262 Antisense
GTCTTATCTTAGTTTCAATTGTTTA 441 469 268 Antisense
Sequence Source Affymetrix Proprietary Database