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[191842_at] ribosomal processing protein

Description ZK430.7 /REP_DB=WormBase Gene ID /WP=CE05083 /TR=Q23494 /GB=AAA83580.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=ribosomal processing protein
Cluster 6grp_highest_10_10 > 96      6grp_high1_10_10 > 79      4grp_highest_8_8 > 23      4grp_high_8_8 > 06      6grp_highest_nonorm > 93      6grp_total > 69      4grp_total > 02      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2016
1 2 3 4 range
A 580.2
(-3)
P 		592.9
(-2.9)
P 		574.5
(-3)
P 		2548.1
(3)
P 		1974
B 728
(-2.6)
P 		596.5
(-3)
P 		651.5
(-2.8)
P 		2590.5
(3)
P 		1994
C 748.4
(-2.8)
P 		686.9
(-3)
P 		686.8
(-3)
P 		2441.2
(3)
P 		1754
avr 685.5
(-2.8) 		625.4
(-3) 		637.6
(-3) 		2526.6
(3) 		1901

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 465
1 2 3 4 5 6 range
A 432.1
(-0.5)
P 		376.3
(-1.5)
P 		285.2
(-3)
P 		368.6
(-1.6)
P 		490.1
(0.5)
P 		638.4
(3)
P 		353
B 443.7
(-0.8)
P 		410.6
(-1.4)
P 		311.8
(-3)
P 		348.6
(-2.4)
P 		573.2
(1.3)
P 		678.8
(3)
P 		367
C 443.2
(-1.3)
P 		401
(-1.9)
P 		322.3
(-3)
P 		328.6
(-2.9)
P 		461
(-1.1)
P 		750.4
(3)
P 		428
avr 439.7
(-0.9) 		396
(-1.6) 		306.4
(-3) 		348.6
(-2.3) 		508.1
(0.2) 		689.2
(3) 		383
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 423
1 2 3 4 range
A 211.3
(-1)
P 		128.7
(-3)
P 		150.2
(-2.5)
P 		373
(3)
P 		244
B 232.1
(-1.7)
P 		147.3
(-3)
P 		151
(-2.9)
P 		552
(3)
P 		405
C 247.7
(-1.6)
P 		197.5
(-3)
P 		239.4
(-1.8)
P 		411.6
(3)
P 		214
avr 230.4
(-1.5) 		157.8
(-3) 		180.2
(-2.5) 		445.5
(3) 		288

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 191
1 2 3 4 5 6 range
A 79.7
(-1.9)
P 		133.8
(1.6)
P 		62.1
(-3)
P 		93.5
(-1)
P 		147.9
(2.5)
P 		155.4
(3)
P 		93
B 154.4
(-0.3)
P 		136.7
(-0.9)
P 		75.7
(-3)
P 		92.3
(-2.4)
P 		232.9
(2.3)
P 		253.1
(3)
P 		177
C 164.3
(0.2)
P 		122.4
(-1.2)
P 		82
(-2.5)
P 		66.1
(-3)
P 		149.2
(-0.3)
P 		251.2
(3)
P 		185
avr 132.8
(-0.6) 		131
(-0.6) 		73.3
(-3) 		84
(-2.6) 		176.7
(1.2) 		219.9
(3) 		147
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191842_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5324
Sequence Type Exemplar sequence
Representative Public ID ZK430.7 NCBI
Target Description ZK430.7 /REP_DB=WormBase Gene ID /WP=CE05083 /TR=Q23494 /GB=AAA83580.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=ribosomal processing protein
Cluster Evidence This cluster is supported by a 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_062380(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062380 NCBI Caenorhabditis elegans ZK430.7 (ZK430.7) mRNA, complete cds. 11/11 None
SNAP00000014028 ENSEMBL cdna:SNAP chromosome:CEL140:II:4420480:4424762:-1 11/11 None
GENEFINDER00000014032 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:4422616:4424884:-1 11/11 None
ZK430.7.2 ENSEMBL cdna:known chromosome:CEL140:II:4422314:4424894:-1 gene:ZK430.7 11/11 None
ZK430.7.1 ENSEMBL cdna:known chromosome:CEL140:II:4422314:4424892:-1 gene:ZK430.7 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:4422614-4424883(-) 100.0 100.0
Public Domain and Genome References
Gene Title ribosomal processing protein
Ensembl ZK430.7
Entrez Gene 173778 Entrez gene
SwissProt Q23494 EMBL-EBI
WormBase CE05083 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:253777_AT transducin family protein / WD-40 repeat family protein at
CANINE:1585853_AT similar to WD repeats and SOF1 domain containing cfa
CANINE_2:CFA.15346.1.A1_S_AT similar to WD repeats and SOF1 domain containing cfa
DROSOPHILA_2:1640460_AT dm
DROSGENOME1:154430_AT dm
CHICKEN:GGA.15424.1.S1_AT WD repeats and SOF1 domain containing gga
CHICKEN:GGAAFFX.11221.1.S1_S_AT WD repeats and SOF1 domain containing gga
CHICKEN:GGAAFFX.11836.1.S1_AT WD repeats and SOF1 domain containing gga
CHICKEN:GGAAFFX.11836.1.S1_S_AT WD repeats and SOF1 domain containing gga
HG-U133_PLUS_2:231784_S_AT WD repeats and SOF1 domain containing hs
HG-U133B:231784_S_AT WD repeats and SOF1 domain containing hs
HG-U133_PLUS_2:220843_S_AT WD repeats and SOF1 domain containing hs
HG-U133A:220843_S_AT WD repeats and SOF1 domain containing hs
HG-U133A_2:220843_S_AT WD repeats and SOF1 domain containing hs
HU35KSUBB:RC_AA131584_AT WD repeats and SOF1 domain containing hs
U133_X3P:G7661767_3P_A_AT WD repeats and SOF1 domain containing hs
U133_X3P:HS2.398195.1.S1_3P_S_AT WD repeats and SOF1 domain containing hs
U133_X3P:HS2.398195.1.S1_3P_AT WD repeats and SOF1 domain containing hs
U133_X3P:HS.273344.2.S2_3P_A_AT WD repeats and SOF1 domain containing hs
U133_X3P:HS.273344.1.S1_3P_S_AT WD repeats and SOF1 domain containing hs
HG-U133_PLUS_2:1568840_AT WD repeats and SOF1 domain containing hs
HG-U133_PLUS_2:225676_S_AT WD repeats and SOF1 domain containing hs
HG-U133B:225676_S_AT WD repeats and SOF1 domain containing hs
HG-U95B:46657_AT WD repeats and SOF1 domain containing hs
HG-U95C:59607_F_AT WD repeats and SOF1 domain containing hs
HG-U95E:80406_R_AT WD repeats and SOF1 domain containing hs
HG-U133_PLUS_2:243388_AT WD repeats and SOF1 domain containing hs
HG-U133B:243388_AT WD repeats and SOF1 domain containing hs
HG-U95B:55863_AT WD repeats and SOF1 domain containing hs
HU35KSUBC:RC_F13653_AT WD repeats and SOF1 domain containing hs
U133_X3P:HS.65636.0.A1_3P_AT WD repeats and SOF1 domain containing hs
MU11KSUBB:W42174_S_AT WD repeats and SOF domain containing 1 mm
MG-U74AV2:103932_AT WD repeats and SOF domain containing 1 mm
MOE430A:1435442_AT WD repeats and SOF domain containing 1 mm
MOUSE430A_2:1435442_AT WD repeats and SOF domain containing 1 mm
MOUSE430_2:1435442_AT WD repeats and SOF domain containing 1 mm
RAE230B:1392399_AT gene model 83, (NCBI) (predicted) rn
RAT230_2:1392399_AT gene model 83, (NCBI) (predicted) rn
YEAST_2:1774980_AT Essential subunit of the U3 (box C+D) snRNP complex required for 2' O-methylation of pre-RNA; has similarity to the beta subunit of trimeric G-proteins and the splicing factor Prp4p Sc
Protein Similarities
Method ID Description E-Value
blast AAA83580 Hypothetical protein ZK430.7 [Caenorhabditis elegans] ref|NP_494781.1| ZK430.7 [Caenorhabditis elegans] 0.0
blast CAE60137 Hypothetical protein CBG03683 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR007287 EMBL-EBI Sof1-like protein 7.9E-19
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 5.1E-7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.4E-7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.1E-6
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 4.9E-4
Pfam IPR007287 EMBL-EBI Sof1-like protein 7.9E-19
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 5.1E-7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.4E-7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.1E-6
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 4.9E-4
Sequence
Target Sequence 
>C. ELEGANS:191842_AT
gatggaggcctataacttcacggtggctagcgaggactatagcctgtacacatttgatat
gagatatatggaacatcctgttcaatctcatcagggattcacgtctgctgtgcttgatgt
cgactattcgccgactggtcaagaatttgtggctgctggatatgatagatctattagatt
gtttaaggctagagatatgactagcagagacgtctactacacaaaacgaatggcctcagt
cctctccgtactctggtctgctgattcgaaattcgttctatctggaagtaacgaaatgaa
tattcgtgtctggaaagcgaatgccgcggagaagcttggaccactcacaaaacgagagaa
acaagctttcgcttataatgaaaaacttcgagatacctataagaaccatccagaagtacg
aagaatcgcaaagcatcgcaatgtgccaagacatattttcacagccgccaaggagcacaa
gcttatcagagacgcccgcggacgacgagatttccgacgagcaaaagccgctggactcga
cgaggaggaatcatatctgccacaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGGAGGCCTATAACTTCACGGTG 518 405 747 Antisense
ACTTCACGGTGGCTAGCGAGGACTA 497 101 761 Antisense
GGAACATCCTGTTCAATCTCATCAG 509 529 816 Antisense
GATTCACGTCTGCTGTGCTTGATGT 397 431 842 Antisense
GTGCTTGATGTCGACTATTCGCCGA 676 479 856 Antisense
ACAAAACGAATGGCCTCAGTCCTCT 94 113 967 Antisense
GTACTCTGGTCTGCTGATTCGAAAT 428 459 994 Antisense
TTTTCACAGCCGCCAAGGAGCACAA 456 675 1202 Antisense
AGCACAAGCTTATCAGAGACGCCCG 104 73 1220 Antisense
GAGATTTCCGACGAGCAAAAGCCGC 171 397 1253 Antisense
GAGGAGGAATCATATCTGCCACAGA 495 403 1288 Antisense
Sequence Source Affymetrix Proprietary Database