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[172739_at] ubiquitin

Description F45H11.2 /REP_DB=WormBase Gene ID /WP=CE10552 /TR=Q93725 /GB=CAB01708.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=ubiquitin
Cluster 6grp_highest_10_10 > 57      6grp_high1_10_10 > 64      4grp_highest_8_8 > 13      4grp_high_8_8 > 31      6grp_highest_nonorm > 83      6grp_total > 64      4grp_total > 24      6grp_cgc > 56      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 317
1 2 3 4 range
A 341.1
(-3)
P 		492
(-0.1)
P 		482
(-0.3)
P 		657.7
(3)
P 		317
B 402.9
(-3)
P 		424.3
(-1.9)
P 		518
(2.8)
P 		521
(3)
P 		118
C 390.9
(-3)
P 		440
(0.8)
P 		468
(3)
P 		411.3
(-1.4)
P 		77
avr 378.3
(-3) 		452.1
(-0.1) 		489.3
(1.4) 		530
(3) 		152

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 327
1 2 3 4 5 6 range
A 411.2
(-2.2)
P 		368
(-3)
P 		690.2
(3)
P 		436.7
(-1.7)
P 		432.8
(-1.8)
P 		442
(-1.6)
P 		322
B 441.8
(-1)
P 		363.2
(-3)
P 		594.4
(3)
P 		397.4
(-2.1)
P 		510.2
(0.8)
P 		534.2
(1.4)
P 		231
C 475.2
(-1.7)
P 		440.3
(-3)
P 		455.8
(-2.4)
P 		474.5
(-1.7)
P 		492.6
(-1)
P 		598.9
(3)
P 		159
avr 442.7
(-1.3) 		390.5
(-3) 		580.1
(3) 		436.2
(-1.6) 		478.5
(-0.2) 		525
(1.3) 		190
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 94
1 2 3 4 range
A 124.2
(2.6)
P 		106.8
(-0.9)
P 		126
(3)
P 		96.3
(-3)
P 		30
B 128.5
(3)
P 		104.8
(-3)
P 		120
(0.8)
P 		111
(-1.4)
P 		24
C 129.4
(0.8)
P 		126.5
(0.7)
P 		163.1
(3)
P 		69.4
(-3)
P 		94
avr 127.4
(1.8) 		112.7
(-0.2) 		136.4
(3) 		92.2
(-3) 		44

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 132
1 2 3 4 5 6 range
A 75.8
(-3)
P 		130.9
(1.4)
P 		150.3
(3)
P 		110.8
(-0.2)
P 		130.6
(1.4)
P 		107.6
(-0.4)
P 		75
B 153.7
(-0.2)
P 		120.9
(-2.1)
P 		144.3
(-0.7)
P 		105.3
(-3)
P 		207.3
(3)
P 		199.2
(2.5)
P 		102
C 176.1
(1.6)
P 		134.3
(-0.8)
P 		116
(-1.8)
P 		95.4
(-3)
P 		159.4
(0.7)
P 		200.5
(3)
P 		105
avr 135.2
(-0.1) 		128.7
(-0.7) 		136.9
(0) 		103.8
(-3) 		165.8
(2.7) 		169.1
(3) 		65
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 172739_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.970
Sequence Type Exemplar sequence
Representative Public ID F45H11.2 NCBI
Target Description F45H11.2 /REP_DB=WormBase Gene ID /WP=CE10552 /TR=Q93725 /GB=CAB01708.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=ubiquitin
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_060316(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060316 NCBI Caenorhabditis elegans F45H11.2 (ubiquitin) mRNA, complete cds. 11/11 None
SNAP00000042268 ENSEMBL cdna:SNAP chromosome:CEL140:I:10381680:10381981:-1 11/11 None
GENEFINDER00000042280 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:10381680:10381981:-1 11/11 None
F45H11.2 ENSEMBL cdna:known chromosome:CEL140:I:10381492:10381981:-1 gene:F45H11.2 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
chrI:10381610-10381912(-) 100.0 100.0
Public Domain and Genome References
Gene Title ubiquitin
Gene Symbol ned-8
Ensembl F45H11.2
Entrez Gene 172910 Entrez gene
SwissProt Q93725 EMBL-EBI
WormBase CE10552 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1583443_S_AT similar to neural precursor cell expressed, developmentally down-regulated gene 8 cfa
CANINE:1603945_AT similar to neural precursor cell expressed, developmentally down-regulated gene 8 cfa
CANINE:1598879_AT similar to neural precursor cell expressed, developmentally down-regulated gene 8 cfa
CANINE:1583442_AT similar to neural precursor cell expressed, developmentally down-regulated gene 8 cfa
CANINE_2:CFA.734.1.A1_S_AT similar to neural precursor cell expressed, developmentally down-regulated gene 8 cfa
CANINE_2:CFA.734.2.A1_A_AT similar to neural precursor cell expressed, developmentally down-regulated gene 8 cfa
CANINE_2:CFA.8849.1.A1_AT similar to neural precursor cell expressed, developmentally down-regulated gene 8 cfa
DROSGENOME1:146460_AT dm
DROSOPHILA_2:1624883_AT dm
HG-U133A:201840_AT neural precursor cell expressed, developmentally down-regulated 8 hs
HG-U133_PLUS_2:201840_AT neural precursor cell expressed, developmentally down-regulated 8 hs
HG-FOCUS:201840_AT neural precursor cell expressed, developmentally down-regulated 8 hs
HG-U133A_2:201840_AT neural precursor cell expressed, developmentally down-regulated 8 hs
HG-U95AV2:1695_AT neural precursor cell expressed, developmentally down-regulated 8 hs
HC-G110:1695_AT neural precursor cell expressed, developmentally down-regulated 8 hs
HU35KSUBC:RC_N49405_S_AT neural precursor cell expressed, developmentally down-regulated 8 hs
HU35KSUBD:RC_N51951_I_AT neural precursor cell expressed, developmentally down-regulated 8 hs
HUGENEFL:D23662_AT neural precursor cell expressed, developmentally down-regulated 8 hs
U133_X3P:G5453759_3P_AT neural precursor cell expressed, developmentally down-regulated 8 hs
MU11KSUBA:D10918_S_AT neural precursor cell expressed, developmentally down-regulated gene 8 mm
MU11KSUBB:MSA.5174.0_S_AT neural precursor cell expressed, developmentally down-regulated gene 8 mm
MU11KSUBB:MSA.2767.0_F_AT neural precursor cell expressed, developmentally down-regulated gene 8 mm
MG-U74AV2:93519_S_AT neural precursor cell expressed, developmentally down-regulated gene 8 mm
MOE430A:1423715_A_AT neural precursor cell expressed, developmentally down-regulated gene 8 mm
MOUSE430A_2:1423715_A_AT neural precursor cell expressed, developmentally down-regulated gene 8 mm
MOUSE430_2:1423715_A_AT neural precursor cell expressed, developmentally down-regulated gene 8 mm
MG-U74BV2:115602_AT Neural precursor cell expressed, developmentally down-regulated gene 8, mRNA (cDNA clone MGC:6118 IMAGE:3585834) mm
MOE430B:1440996_AT Neural precursor cell expressed, developmentally down-regulated gene 8, mRNA (cDNA clone MGC:6118 IMAGE:3585834) mm
MOUSE430_2:1440996_AT Neural precursor cell expressed, developmentally down-regulated gene 8, mRNA (cDNA clone MGC:6118 IMAGE:3585834) mm
MOE430B:1445811_AT Neural precursor cell expressed, developmentally down-regulated gene 8, mRNA (cDNA clone MGC:6118 IMAGE:3585834) mm
MOUSE430_2:1445811_AT Neural precursor cell expressed, developmentally down-regulated gene 8, mRNA (cDNA clone MGC:6118 IMAGE:3585834) mm
MG-U74BV2:104807_AT Neural precursor cell expressed, developmentally down-regulated gene 8, mRNA (cDNA clone MGC:6118 IMAGE:3585834) mm
MU19KSUBC:TC40983_AT Neural precursor cell expressed, developmentally down-regulated gene 8, mRNA (cDNA clone MGC:6118 IMAGE:3585834) mm
RT-U34:AA685152_R_AT neural precursor cell expressed, developmentally down-regulated gene 8 rn
RG-U34A:AA685152_R_AT neural precursor cell expressed, developmentally down-regulated gene 8 rn
RT-U34:RC_AA892544_S_AT neural precursor cell expressed, developmentally down-regulated gene 8 rn
RG-U34A:RC_AA892544_S_AT neural precursor cell expressed, developmentally down-regulated gene 8 rn
RAE230A:1398860_AT neural precursor cell expressed, developmentally down-regulated gene 8 rn
RAT230_2:1398860_AT neural precursor cell expressed, developmentally down-regulated gene 8 rn
Protein Similarities
Method ID Description E-Value
blast CAB01708 Hypothetical protein F45H11.2 [Caenorhabditis elegans] ref|NP_492717.1| F45H11.2 [Caenorhabditis elegans] 1.0E-23
blast AAF53724 CG10679-PA [Drosophila melanogaster] ref|NP_609919.1| CG10679-PA [Drosophila melanogaster] 5.0E-21
blast NP_032709 neural precursor cell expressed, developmentally down-regulated gene 8 [Mus musculus] gb|AAH84728.1| Neural precursor cell expressed, developmentally down-regulated gene 8 [Rattus norvegicus] gb|AAH04625.1| Nedd8 protein [Mus musculus] dbj|BAE27660.1| unnamed protein product [Mus musculus] dbj|BAE27394.1| unnamed protein product [Mus musculus] ref|NP_620233.1| neural precursor cell expressed, developmentally down-regulated gene 8 [Rattus norvegicus] sp|P29595|NEDD8_MOUSE Neddylin (Ubiquitin-like protein NEDD8) gb|AAC64189.1| ubiquitin-like protein [Rattus norvegicus] dbj|BAA01719.1| ubiquitin like protein [Mus musculus] 9.0E-21
Protein Domains
Database ID Description E-Value
Pfam IPR000626 EMBL-EBI Ubiquitin 5.9E-31
Sequence
Target Sequence 
>C. ELEGANS:172739_AT
gctcatcaaagttaaaaccttgactggaaaggaaattgagctggacatcgaaccaaatga
tcgagtcgagagaatcaaagaaaaggtcgaagaaaaagaaggaatcccaccaccccaaca
gcgtctcattttcgccggaaagcaaatgaacgacgacaagacagcagcagattacaaggt
tctcggtggatctgttctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTCATCAAAGTTAAAACCTTGACT 153 297 15 Antisense
GGAAAGGAAATTGAGCTGGACATCG 547 525 40 Antisense
GAGCTGGACATCGAACCAAATGATC 501 385 52 Antisense
CGAACCAAATGATCGAGTCGAGAGA 279 253 63 Antisense
GTCTCATTTTCGCCGGAAAGCAAAT 596 469 137 Antisense
CGCCGGAAAGCAAATGAACGACGAC 586 257 147 Antisense
AATGAACGACGACAAGACAGCAGCA 133 163 159 Antisense
ACGACGACAAGACAGCAGCAGATTA 618 91 164 Antisense
GCAGCAGATTACAAGGTTCTCGGTG 658 309 178 Antisense
GATTACAAGGTTCTCGGTGGATCTG 73 395 184 Antisense
CAAGGTTCTCGGTGGATCTGTTCTT 34 185 189 Antisense
Sequence Source Affymetrix Proprietary Database