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[185786_at]

Description Y39A1A.14 /REP_DB=WormBase Gene ID /WP=CE19133 /TR=Q9XX15 /GB=CAA21025.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 78      6grp_high1_10_10 > 86      4grp_highest_8_8 > 23      4grp_high_8_8 > 06      6grp_highest_nonorm > 94      6grp_total > 77      4grp_total > 02      6grp_highest_sub > In      6grp_high1_sub > In      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 713
1 2 3 4 range
A 739.5
(-3)
P 		870.9
(-1.7)
P 		782.2
(-2.6)
P 		1330.7
(3)
P 		591
B 744.3
(-2.2)
P 		688.6
(-2.7)
P 		652.3
(-3)
P 		1313.7
(3)
P 		661
C 660.2
(-2.6)
P 		617.5
(-3)
P 		715.9
(-2.1)
P 		1271.4
(3)
P 		654
avr 714.7
(-3) 		725.7
(-2.9) 		716.8
(-3) 		1305.3
(3) 		591

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 523
1 2 3 4 5 6 range
A 341.5
(-3)
P 		346.4
(-2.9)
P 		513.2
(0)
P 		466.8
(-0.8)
P 		442
(-1.2)
P 		681.4
(3)
P 		340
B 304.8
(-3)
P 		439.9
(-1.3)
P 		475.8
(-0.9)
P 		369.4
(-2.2)
P 		584.4
(0.5)
P 		783.3
(3)
P 		479
C 426.2
(-2.9)
P 		466
(-2.4)
P 		422.2
(-3)
P 		459.5
(-2.4)
P 		570.2
(-0.8)
P 		828.2
(3)
P 		406
avr 357.5
(-3) 		417.4
(-2.1) 		470.4
(-1.3) 		431.9
(-1.9) 		532.2
(-0.4) 		764.3
(3) 		407
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 129
1 2 3 4 range
A 269.3
(3)
P 		189.1
(-3)
P 		204.5
(-1.8)
P 		194.8
(-2.6)
P 		80
B 237.3
(1)
P 		170.1
(-2.1)
P 		151.1
(-3)
P 		280
(3)
P 		129
C 218.6
(0.4)
P 		177.5
(-3)
P 		249.5
(3)
P 		214.4
(0.1)
P 		72
avr 241.7
(3) 		178.9
(-3) 		201.7
(-0.8) 		229.7
(1.9) 		63

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 229
1 2 3 4 5 6 range
A 63
(-3)
P 		123.2
(0.5)
P 		111.8
(-0.2)
P 		118.4
(0.2)
P 		133.4
(1.1)
P 		165.9
(3)
P 		103
B 106
(-2.7)
P 		146.4
(-1.5)
P 		115.5
(-2.5)
P 		97.8
(-3)
P 		237.4
(1.3)
P 		292.1
(3)
P 		194
C 158
(-0.9)
P 		142.2
(-1.4)
P 		107.4
(-2.5)
P 		92.4
(-3)
P 		184.5
(-0)
P 		277.2
(3)
P 		185
avr 109
(-2.7) 		137.3
(-1.5) 		111.6
(-2.6) 		102.9
(-3) 		185.1
(0.5) 		245.1
(3) 		142
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 185786_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6031
Sequence Type Exemplar sequence
Representative Public ID Y39A1A.14 NCBI
Target Description Y39A1A.14 /REP_DB=WormBase Gene ID /WP=CE19133 /TR=Q9XX15 /GB=CAA21025.1 /SUBMIT=HINXTON /CHR=3 /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_066948(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066948 NCBI Caenorhabditis elegans Y39A1A.14 (Y39A1A.14) mRNA, complete cds. 11/11 None
SNAP00000012915 ENSEMBL cdna:SNAP chromosome:CEL140:III:10646048:10650428:1 11/11 None
GENEFINDER00000012944 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:10649396:10650428:1 11/11 None
Y39A1A.14 ENSEMBL cdna:known chromosome:CEL140:III:10649396:10650492:1 gene:Y39A1A.14 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
chrIII:10649391-10650424(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y39A1A.14
Entrez Gene 176488 Entrez gene
SwissProt Q9XX15 EMBL-EBI
WormBase CE19133 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:251657_AT nucleolar essential protein-related at
CANINE:1584066_S_AT similar to Probable ribosome biogenesis protein NEP1 (C2f protein) cfa
CANINE:1591428_AT similar to Probable ribosome biogenesis protein NEP1 (C2f protein) cfa
CANINE:1584065_AT similar to Probable ribosome biogenesis protein NEP1 (C2f protein) cfa
CANINE_2:CFA.12321.1.A1_AT similar to Probable ribosome biogenesis protein NEP1 (C2f protein) cfa
CANINE_2:CFAAFFX.22271.1.S1_AT similar to Probable ribosome biogenesis protein NEP1 (C2f protein) cfa
CANINE_2:CFAAFFX.22271.1.S1_S_AT similar to Probable ribosome biogenesis protein NEP1 (C2f protein) cfa
DROSOPHILA_2:1629662_AT dm
DROSGENOME1:144482_AT dm
CHICKEN:GGA.2089.1.S1_AT similar to Probable ribosome biogenesis protein NEP1 (C2f protein) gga
HG-U133A_2:209233_AT C2f protein hs
HG-U133A:209233_AT C2f protein hs
HG-U133_PLUS_2:209233_AT C2f protein hs
HUGENEFL:U72514_AT C2f protein hs
U133_X3P:G2276395_3P_AT C2f protein hs
HG-U95AV2:39357_AT C2f protein hs
HG-U95E:73307_AT C2f protein hs
HG-U95D:73511_AT C2f protein hs
HG-U95D:73513_G_AT C2f protein hs
HG-U95E:80463_AT C2f protein hs
MU11KSUBA:AC002397_GENEC2F_S_AT gene rich cluster, C2f gene mm
MG-U74AV2:160531_AT gene rich cluster, C2f gene mm
MOE430A:1416393_AT gene rich cluster, C2f gene mm
MOUSE430A_2:1416393_AT gene rich cluster, C2f gene mm
MOUSE430_2:1416393_AT gene rich cluster, C2f gene mm
RG-U34C:RC_AI071470_AT gene rich cluster, C2f gene (predicted) rn
RAE230B:1377797_AT gene rich cluster, C2f gene (predicted) rn
RAT230_2:1377797_AT gene rich cluster, C2f gene (predicted) rn
RAT230_2:1396298_AT Gene rich cluster, C2f gene (predicted) rn
RAE230B:1396298_AT Gene rich cluster, C2f gene (predicted) rn
RG-U34B:RC_AI045547_AT Gene rich cluster, C2f gene (predicted) rn
YEAST_2:1777706_AT Protein required for the maturation of the 18S rRNA and for 40S ribosome production; associated with spindle/microtubules; nuclear localization depends on physical interaction with Nop14p; may bind snoRNAs Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7046 ribosome biogenesis inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA21024 Hypothetical protein Y39A1A.13 [Caenorhabditis elegans] ref|NP_499348.1| Y39A1A.13 [Caenorhabditis elegans] 0.0
blast CAE71425 Hypothetical protein CBG18336 [Caenorhabditis briggsae] 1.0E-137
blast CAA21025 Hypothetical protein Y39A1A.14 [Caenorhabditis elegans] ref|NP_499349.1| Y39A1A.14 [Caenorhabditis elegans] sp|Q9XX15|NEP1_CAEEL Probable ribosome biogenesis protein nep-1 1.0E-128
blast CAE71427 Hypothetical protein CBG18338 [Caenorhabditis briggsae] 1.0E-124
blast EAA07709 ENSANGP00000016225 [Anopheles gambiae str. PEST] ref|XP_312105.2| ENSANGP00000016225 [Anopheles gambiae str. PEST] 3.0E-67
Protein Domains
Database ID Description E-Value
Pfam IPR005304 EMBL-EBI Suppressor Mra1 2.9E-101
Pfam IPR005304 EMBL-EBI Suppressor Mra1 2.9E-101
Sequence
Target Sequence 
>C. ELEGANS:185786_AT
agatccggctgattatcggccagatatcctacatcaatgcttgttgaatctacttgatag
tccgcttaacagagccggaaagcttcgtgtcttctttagaacgagcaagaatgtgctcgt
tgatgtctcaccacagtgcagaattccaagaacttttgatcgattctgtggacttatggt
ccaactcctgcacaaactctccattcgagccgccgaaaccactcaaaagctgatgtcagt
agtgaagaatccagtgtcgaaccatcttccagtgggatcccgtaagatgctcatgtcgtt
caatgtacctgagctaacaatggctaataagcttgttgcaccggaaaccgacgagcctct
ggtccttattatcggtggaattgctcgtggaaagatcgtcgtcgattacaacgattctga
gaccaagatcagcaattatccattgagtgcagcgttgacttgtgccaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGATCCGGCTGATTATCGGCCAGAT 103 67 201 Antisense
GAATCTACTTGATAGTCCGCTTAAC 687 327 246 Antisense
AGAGCCGGAAAGCTTCGTGTCTTCT 84 69 271 Antisense
GAATGTGCTCGTTGATGTCTCACCA 236 333 309 Antisense
GTGGACTTATGGTCCAACTCCTGCA 421 491 368 Antisense
GTCGAACCATCTTCCAGTGGGATCC 51 475 456 Antisense
AGTGGGATCCCGTAAGATGCTCATG 420 59 471 Antisense
GATGCTCATGTCGTTCAATGTACCT 613 413 486 Antisense
TAAGCTTGTTGCACCGGAAACCGAC 591 627 528 Antisense
GCCTCTGGTCCTTATTATCGGTGGA 406 279 555 Antisense
GAGTGCAGCGTTGACTTGTGCCAAA 181 401 645 Antisense
Sequence Source Affymetrix Proprietary Database