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[193704_at] nucleolar protein required for pre-rRNA splicing

Description Y66H1A.4 /REP_DB=WormBase Gene ID /WP=CE22755 /TR=Q9TYK1 /GB=AAD12858.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=nucleolar protein required for pre-rRNA splicing
Cluster 6grp_highest_10_10 > 94      6grp_high1_10_10 > 58      4grp_highest_8_8 > 16      4grp_high_8_8 > 52      6grp_highest_nonorm > 84      6grp_total > 49      4grp_total > 59      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 757
1 2 3 4 range
A 1195.7
(1.3)
P 		1358.4
(3)
P 		1327.3
(2.7)
P 		794.6
(-3)
P 		564
B 1220.4
(0.5)
P 		1454.9
(3)
P 		1418.6
(2.6)
P 		889.2
(-3)
P 		566
C 1260.2
(1.2)
P 		1483.1
(3)
P 		1373.4
(2.1)
P 		725.8
(-3)
P 		757
avr 1225.4
(1) 		1432.1
(3) 		1373.1
(2.4) 		803.2
(-3) 		629

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 336
1 2 3 4 5 6 range
A 543.3
(0.7)
P 		651.4
(3)
P 		473.9
(-0.8)
P 		374.2
(-3)
P 		570.3
(1.2)
P 		624.8
(2.4)
P 		277
B 655.1
(2.1)
P 		614.5
(1.1)
P 		524.9
(-0.9)
P 		429.4
(-3)
P 		480.9
(-1.8)
P 		697.5
(3)
P 		268
C 663.2
(3)
P 		511.7
(-0)
P 		374.2
(-2.8)
P 		362
(-3)
P 		535.3
(0.5)
P 		606.7
(1.9)
P 		301
avr 620.5
(2.5) 		592.5
(1.8) 		457.7
(-1.4) 		388.5
(-3) 		528.8
(0.3) 		643
(3) 		255
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 362
1 2 3 4 range
A 435.4
(3)
P 		294.9
(0.4)
P 		347
(1.3)
P 		116.3
(-3)
P 		319
B 389.2
(3)
P 		359.3
(2.1)
P 		328.7
(1.2)
P 		189.5
(-3)
P 		200
C 417.1
(2)
P 		426.4
(2.1)
P 		478.7
(3)
P 		122.4
(-3)
P 		356
avr 413.9
(3) 		360.2
(1.8) 		384.8
(2.4) 		142.7
(-3) 		271

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 187
1 2 3 4 5 6 range
A 100.2
(-2.8)
P 		231.7
(3)
P 		103.2
(-2.6)
P 		94.9
(-3)
P 		172.1
(0.4)
P 		152.1
(-0.5)
P 		137
B 227.9
(1.7)
P 		204.5
(0.7)
P 		127.5
(-2.4)
P 		113.7
(-3)
P 		195.4
(0.3)
P 		260.1
(3)
P 		146
C 245.8
(3)
P 		156.1
(-0.1)
P 		95.2
(-2.2)
P 		72.8
(-3)
P 		173.2
(0.5)
P 		203.1
(1.5)
P 		173
avr 191.3
(2.3) 		197.4
(2.6) 		108.6
(-2.2) 		93.8
(-3) 		180.2
(1.7) 		205.1
(3) 		111
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193704_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10592
Sequence Type Exemplar sequence
Representative Public ID Y66H1A.4 NCBI
Target Description Y66H1A.4 /REP_DB=WormBase Gene ID /WP=CE22755 /TR=Q9TYK1 /GB=AAD12858.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=nucleolar protein required for pre-rRNA splicing
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_067526(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067526 NCBI Caenorhabditis elegans Y66H1A.4 (Y66H1A.4) mRNA, complete cds. 11/11 None
SNAP00000007349 ENSEMBL cdna:SNAP chromosome:CEL140:IV:426170:426952:1 11/11 None
GENEFINDER00000007353 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:426170:426952:1 11/11 None
Y66H1A.4 ENSEMBL cdna:known chromosome:CEL140:IV:425972:427204:1 gene:Y66H1A.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
chrIV:425941-426952(+) 77.86 100.0
Public Domain and Genome References
Gene Title nucleolar protein required for pre-rRNA splicing
Ensembl Y66H1A.4
Entrez Gene 176870 Entrez gene
SwissProt Q9TYK1 EMBL-EBI
WormBase CE36757 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:259347_AT Gar1 RNA-binding region family protein at
CANINE_2:CFA.21398.1.S1_S_AT similar to nucleolar protein family A, member 1 cfa
DROSOPHILA_2:1628723_AT dm
DROSGENOME1:143696_AT dm
CHICKEN:GGAAFFX.21456.1.S1_S_AT similar to nucleolar protein family A, member 1; H/ACA small nucleolar RNPs gga
HG-U133_PLUS_2:219110_AT nucleolar protein family A, member 1 (H/ACA small nucleolar RNPs) hs
HG-U133A:219110_AT nucleolar protein family A, member 1 (H/ACA small nucleolar RNPs) hs
HG-FOCUS:219110_AT nucleolar protein family A, member 1 (H/ACA small nucleolar RNPs) hs
HG-U133A_2:219110_AT nucleolar protein family A, member 1 (H/ACA small nucleolar RNPs) hs
U133_X3P:G9506712_3P_AT nucleolar protein family A, member 1 (H/ACA small nucleolar RNPs) hs
HG-U95C:62544_S_AT nucleolar protein family A, member 1 (H/ACA small nucleolar RNPs) hs
HG-U95C:62545_R_AT nucleolar protein family A, member 1 (H/ACA small nucleolar RNPs) hs
HG-U95C:62546_AT nucleolar protein family A, member 1 (H/ACA small nucleolar RNPs) hs
HU35KSUBA:AA149259_AT Nucleolar protein family A, member 1 (H/ACA small nucleolar RNPs) hs
HU35KSUBC:RC_D12227_F_AT Nucleolar protein family A, member 1 (H/ACA small nucleolar RNPs) hs
HU35KSUBC:RC_D11886_F_AT Nucleolar protein family A, member 1 (H/ACA small nucleolar RNPs) hs
MU11KSUBB:W48388_G_AT nucleolar protein family A, member 1 (H/ACA small nucleolar RNPs) mm
MG-U74AV2:104766_AT nucleolar protein family A, member 1 (H/ACA small nucleolar RNPs) mm
MOE430A:1418305_S_AT nucleolar protein family A, member 1 (H/ACA small nucleolar RNPs) mm
MOUSE430A_2:1418305_S_AT nucleolar protein family A, member 1 (H/ACA small nucleolar RNPs) mm
MOUSE430_2:1418305_S_AT nucleolar protein family A, member 1 (H/ACA small nucleolar RNPs) mm
MG-U74AV2:160720_AT Nucleolar protein family A, member 1 (H/ACA small nucleolar RNPs), mRNA (cDNA clone MGC:28064 IMAGE:3709271) mm
MU19KSUBA:TC23556_AT Nucleolar protein family A, member 1 (H/ACA small nucleolar RNPs), mRNA (cDNA clone MGC:28064 IMAGE:3709271) mm
MU11KSUBB:W48388_AT Nucleolar protein family A, member 1 (H/ACA small nucleolar RNPs), mRNA (cDNA clone MGC:28064 IMAGE:3709271) mm
RG-U34B:RC_AA925419_AT similar to nucleolar protein family A, member 1 rn
RAE230A:1374857_AT similar to nucleolar protein family A, member 1 rn
RAT230_2:1374857_AT similar to nucleolar protein family A, member 1 rn
RG-U34C:RC_AI137186_AT Similar to nucleolar protein family A, member 1 rn
YEAST_2:1772676_AT Protein component of the H/ACA snoRNP pseudouridylase complex, involved in the modification and cleavage of the 18S pre-rRNA Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6364 rRNA processing inferred from electronic annotation QuickGO AmiGO
7046 ribosome biogenesis inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
30532 small nuclear ribonucleoprotein complex inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
19843 rRNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAD12858 Hypothetical protein Y66H1A.4 [Caenorhabditis elegans] ref|NP_499927.2| Y66H1A.4 [Caenorhabditis elegans] sp|Q9TYK1|NOLA1_CAEEL Putative H/ACA ribonucleoprotein complex subunit 1-like protein 9.0E-52
blast T33925 hypothetical protein Y66H1A.4 - Caenorhabditis elegans 9.0E-52
blast Q61B10 Putative H/ACA ribonucleoprotein complex subunit 1-like protein emb|CAE67941.1| Hypothetical protein CBG13541 [Caenorhabditis briggsae] 2.0E-47
Protein Domains
Database ID Description E-Value
Pfam IPR007504 EMBL-EBI Gar1 protein RNA-binding region 4.8E-77
Sequence
Target Sequence 
>C. ELEGANS:193704_AT
gcggccgtggaggttacgatcagggaccaccagaggaagttgtgctcgtcggtgtcttct
cccatcagtgccaagatgatattgtttgcaacaatacgagtggaaaaatcccatatttca
atgctccaatttacttcaagaataaggaacaagtcggaaaaatcgacgagatttttggat
cccccggggagaacggattctccgtcacattgtcacaaggagtaaaagcctcttcattcg
aaccagagtctcagctgtacattgatcccggaaagcttttaccagttgatcgtttccttc
cacaagccggcggagggcgtggaagaggtggtcgcggacgcggtggggatcgtggaggac
gtggcagtgaccgtggaggtcgtggaggctttggaagaggcggcggcggtggattcagag
gcggggatcgcggaggttttggcggtggtcgtggaggattccgaggcggagaccgtggag
ggttccgtggtggccgtggaggagacttcggaggtcgcggacgtggagact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCGGCCGTGGAGGTTACGATCAGGG 46 293 248 Antisense
TCTTCTCCCATCAGTGCCAAGATGA 401 617 302 Antisense
AACGGATTCTCCGTCACATTGTCAC 500 143 439 Antisense
GTAAAAGCCTCTTCATTCGAACCAG 694 451 469 Antisense
AGAGTCTCAGCTGTACATTGATCCC 226 69 492 Antisense
ATTGATCCCGGAAAGCTTTTACCAG 349 3 508 Antisense
GCTTTTACCAGTTGATCGTTTCCTT 371 303 522 Antisense
TTCCACAAGCCGGCGGAGGGCGTGG 629 697 545 Antisense
GGACGTGGCAGTGACCGTGGAGGTC 244 499 604 Antisense
GGCGGAGACCGTGGAGGGTTCCGTG 391 497 712 Antisense
TTCGGAGGTCGCGGACGTGGAGACT 677 677 754 Antisense
Sequence Source Affymetrix Proprietary Database