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[193937_s_at] procollagen-lysine,2-oxoglutarate 5-dioxygenase precusor

Description F52H3.1 /REP_DB=WormBase Gene ID /WP=CE03397 /TR=SW:Q20679 /GB=CAA91321.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=procollagen-lysine,2-oxoglutarate 5-dioxygenase precusor
Cluster 6grp_highest_10_10 > 37      6grp_high1_10_10 > 72      6grp_highest_nonorm > 63      6grp_total > 70      4grp_total > 59      6grp_highest_sub > 03_04      6grp_cgc > 85      6grp_high1_sub > 04      6grp_cgc_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 703
1 2 3 4 range
A 481.1
(-0)
P 		725.7
(2.3)
P 		796
(3)
P 		172.1
(-3)
A 		624
B 445.4
(-0.5)
P 		695.8
(1.7)
P 		840.1
(3)
P 		163.3
(-3)
A 		677
C 569.2
(0.3)
P 		696.6
(1.5)
P 		865.9
(3)
P 		206.3
(-3)
A 		660
avr 498.6
(-0.1) 		706
(1.8) 		834
(3) 		180.6
(-3) 		653

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 530
1 2 3 4 5 6 range
A 624.5
(-2.1)
P 		630.9
(-2)
P 		706.8
(-0.7)
P 		928.9
(3)
P 		633.9
(-2)
P 		571.9
(-3)
P 		357
B 521.8
(-3)
P 		605
(-1.6)
P 		882.6
(3)
P 		857.6
(2.6)
P 		674.1
(-0.5)
P 		652
(-0.8)
P 		361
C 435.8
(-3)
P 		563
(-1.6)
P 		778.9
(0.9)
P 		965.6
(3)
P 		559.5
(-1.6)
P 		647.3
(-0.6)
P 		530
avr 527.4
(-3) 		599.6
(-1.9) 		789.4
(1) 		917.4
(3) 		622.5
(-1.5) 		623.7
(-1.5) 		390
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 277
1 2 3 4 range
A 175.2
(1.9)
P 		157.5
(1.3)
P 		208.1
(3)
P 		25.2
(-3)
A 		183
B 142
(1)
P 		171.9
(2.1)
P 		194.7
(3)
P 		34.8
(-3)
A 		160
C 188.4
(0.5)
P 		200.3
(0.7)
P 		301.8
(3)
P 		34.8
(-3)
A 		267
avr 168.5
(1) 		176.6
(1.3) 		234.9
(3) 		31.6
(-3) 		203

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 159
1 2 3 4 5 6 range
A 115.1
(-3)
P 		224.4
(2.4)
P 		153.9
(-1.1)
P 		235.6
(3)
P 		191.3
(0.8)
P 		139.2
(-1.8)
P 		121
B 181.5
(-3)
P 		201.4
(-1.7)
P 		214.3
(-0.9)
P 		227.2
(-0)
P 		273.9
(3)
P 		243.1
(1)
P 		92
C 161.5
(-3)
P 		171.8
(-1.9)
P 		198.2
(1)
P 		194.2
(0.6)
P 		181.1
(-0.9)
P 		216.7
(3)
P 		55
avr 152.7
(-3) 		199.2
(1.2) 		188.8
(0.3) 		219
(3) 		215.4
(2.7) 		199.7
(1.3) 		66
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193937_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2799
Sequence Type Exemplar sequence
Representative Public ID F52H3.1 NCBI
Target Description F52H3.1 /REP_DB=WormBase Gene ID /WP=CE03397 /TR=SW:Q20679 /GB=CAA91321.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=procollagen-lysine,2-oxoglutarate 5-dioxygenase precusor
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_063769(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063769 NCBI Caenorhabditis elegans LEThal family member (let-268) (let-268) mRNA, complete cds. 11/11 None
GENEFINDER00000021630 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:10033359:10038028:-1 11/11 None
F52H3.1.1 ENSEMBL cdna:known chromosome:CEL140:II:10033227:10038033:-1 gene:F52H3.1 11/11 None
F52H3.1.3 ENSEMBL cdna:known chromosome:CEL140:II:10033359:10039851:-1 gene:F52H3.1 11/11 None
F52H3.1.2 ENSEMBL cdna:known chromosome:CEL140:II:10033359:10038384:-1 gene:F52H3.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000021626 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:10033355-10038025(-) 100.0 100.0
Public Domain and Genome References
Gene Title procollagen-lysine,2-oxoglutarate 5-dioxygenase precusor
Gene Symbol let-268
Ensembl F52H3.1
Entrez Gene 174564 Entrez gene
SwissProt Q20679 EMBL-EBI
WormBase CE03397 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFA.16820.1.S1_AT similar to procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 precursor cfa
CANINE_2:CFAAFFX.21446.1.S1_AT similar to procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 precursor cfa
CANINE_2:CFAAFFX.21446.1.S1_S_AT similar to procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 precursor cfa
DROSOPHILA_2:1625588_S_AT dm
DROSGENOME1:154810_AT dm
HU35KSUBA:AA010762_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 hs
HU35KSUBA:RC_AA131084_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 hs
HU35KSUBA:AA459536_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 hs
HG-U133A:202185_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 hs
HG-U133_PLUS_2:202185_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 hs
HG-FOCUS:202185_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 hs
HG-U133A_2:202185_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 hs
U133_X3P:G4505890_3P_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 hs
HG-U95AV2:39801_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 hs
HG-U95C:65317_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 hs
MU11KSUBA:AA596935_S_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 mm
MG-U74AV2:95009_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 mm
MG-U74AV2:161253_I_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 mm
MG-U74AV2:160742_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 mm
MG-U74CV2:167334_F_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 mm
MOE430A:1415901_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 mm
MOUSE430A_2:1415901_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 mm
MOUSE430_2:1415901_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 mm
MG-U74BV2:165291_I_AT Procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 (Plod3), mRNA mm
MU19KSUBA:TC18200_AT Procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 (Plod3), mRNA mm
MU19KSUBC:TC40155_AT Procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 (Plod3), mRNA mm
MU19KSUBC:TC40156_AT Procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 (Plod3), mRNA mm
RG-U34A:RC_AA892859_G_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 rn
RG-U34A:RC_AA892859_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 rn
RG-U34B:RC_AA923945_S_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 rn
RAE230A:1372877_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 rn
RAT230_2:1372877_AT procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 rn
RG-U34C:RC_AI072366_AT Procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
19538 protein metabolism inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5783 endoplasmic reticulum inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8475 procollagen-lysine 5-dioxygenase activity inferred from electronic annotation QuickGO AmiGO
16706 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA91321 Hypothetical protein F52H3.1 [Caenorhabditis elegans] ref|NP_496170.1| LEThal family member (let-268) [Caenorhabditis elegans] sp|Q20679|PLOD_CAEEL Procollagen-lysine,2-oxoglutarate 5-dioxygenase precursor (Lysyl hydroxylase) (LH) (Lethal protein 268) 0.0
blast CAE67799 Hypothetical protein CBG13377 [Caenorhabditis briggsae] 0.0
blast AAH43893 Plod-prov protein [Xenopus laevis] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR005123 EMBL-EBI 2OG-Fe(II) oxygenase superfamily 6.9E-16
Sequence
Target Sequence 
>C. ELEGANS:193937_S_AT
tttgggaggctcgttacatccatccaggctaccataaaatcatggaacctgaacatgtag
tagatcaagcctgtccagatgtctacgatttcccactgatgtctgagagattctgtgaag
agcttattgaagaaatggaaggatttggacgatggagtgatggaagtaacaacgacaaac
gtcttgcgggtggatatgagaatgtaccaactcgagatattcatatgaatcaagttggtt
ttgagagacaatggttgtactttatggacacgtatgttcgtccagtacaagagaagactt
tcataggatattatcatcagccagttgagtccaatatgatgttcgttgttcgttacaaac
ctgaagagcaaccatcgctccgcccacatcatgatgcaagcactttcagtattgatattg
cactgaacaagaagggaagagactatgaaggtggaggtgtacgatatatcagatataatt
gcacggtgccagcagatgaagttggctatgcaatgatgttccccggaagattgacacatc
ttcatgagggtcttgccaccacaaagggtacca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTGGGAGGCTCGTTACATCCATCC 323 667 1601 Antisense
TACATCCATCCAGGCTACCATAAAA 281 645 1615 Antisense
AAGCCTGTCCAGATGTCTACGATTT 542 149 1667 Antisense
TCTACGATTTCCCACTGATGTCTGA 142 615 1682 Antisense
GACAAACGTCTTGCGGGTGGATATG 98 367 1774 Antisense
GACACGTATGTTCGTCCAGTACAAG 616 367 1867 Antisense
ACCTGAAGAGCAACCATCGCTCCGC 35 89 1959 Antisense
CTCCGCCCACATCATGATGCAAGCA 289 235 1978 Antisense
TGGCTATGCAATGATGTTCCCCGGA 132 545 2103 Antisense
CACATCTTCATGAGGGTCTTGCCAC 203 197 2135 Antisense
GGTCTTGCCACCACAAAGGGTACCA 104 1 2149 Antisense
Sequence Source Affymetrix Proprietary Database