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[193914_at] gamma-butyrobetaine,2-oxoglutarate dioxygenase

Description M05D6.7 /REP_DB=WormBase Gene ID /WP=CE03505 /GEN=gbh-2 /TR=Q21526 /GB=CAA91416.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=gamma-butyrobetaine,2-oxoglutarate dioxygenase
Cluster 6grp_highest_10_10 > 76      6grp_high1_10_10 > 66      4grp_highest_8_8 > 07      4grp_high_8_8 > 21      6grp_highest_nonorm > 95      6grp_total > 67      4grp_total > 19      6grp_highest_sub > Da      6grp_cgc > 38      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2571
1 2 3 4 range
A 1225.3
(-2.7)
P 		2004.7
(0.3)
P 		1134.9
(-3)
P 		2693.5
(3)
P 		1559
B 1301.5
(-2.2)
P 		2028.9
(-0.5)
P 		978.9
(-3)
P 		3550.1
(3)
P 		2571
C 1114.4
(-3)
P 		1828.9
(-0.7)
P 		1235
(-2.6)
P 		3006.2
(3)
P 		1892
avr 1213.7
(-2.7) 		1954.2
(-0.4) 		1116.3
(-3) 		3083.3
(3) 		1967

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1102
1 2 3 4 5 6 range
A 492.3
(-1.8)
P 		302.7
(-3)
P 		614.7
(-1.1)
P 		532.4
(-1.6)
P 		515.6
(-1.7)
P 		1281
(3)
P 		978
B 631.2
(-1.2)
P 		353.6
(-3)
P 		578.8
(-1.5)
P 		551.6
(-1.7)
P 		586.6
(-1.5)
P 		1278.3
(3)
P 		925
C 529.3
(-2.7)
P 		499.8
(-2.8)
P 		527.1
(-2.7)
P 		612
(-2.1)
P 		476
(-3)
P 		1404.6
(3)
P 		929
avr 550.9
(-1.9) 		385.4
(-3) 		573.5
(-1.8) 		565.3
(-1.8) 		526.1
(-2.1) 		1321.3
(3) 		936
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 530
1 2 3 4 range
A 446.1
(3)
P 		435.2
(2.6)
P 		296.7
(-3)
P 		394.3
(0.9)
P 		149
B 415
(-0.9)
P 		501.1
(0.1)
P 		226.8
(-3)
P 		756.5
(3)
P 		530
C 368.9
(-3)
P 		525.8
(3)
P 		430.4
(-0.6)
P 		506.9
(2.3)
P 		157
avr 410
(-0.6) 		487.4
(1.3) 		318
(-3) 		552.6
(3) 		235

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 386
1 2 3 4 5 6 range
A 90.8
(-3)
P 		107.6
(-2.5)
P 		133.9
(-1.8)
P 		135
(-1.8)
P 		155.6
(-1.2)
P 		311.9
(3)
P 		221
B 219.6
(-1.3)
P 		117.7
(-3)
P 		140.5
(-2.6)
P 		146.1
(-2.5)
P 		238.3
(-1)
P 		476.7
(3)
P 		359
C 196.2
(-1.7)
P 		152.5
(-2.5)
P 		134.1
(-2.8)
P 		123.1
(-3)
P 		154
(-2.5)
P 		470.2
(3)
P 		347
avr 168.9
(-2.1) 		125.9
(-3) 		136.2
(-2.8) 		134.7
(-2.8) 		182.6
(-1.8) 		419.6
(3) 		294
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193914_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3698
Sequence Type Exemplar sequence
Representative Public ID M05D6.7 NCBI
Target Description M05D6.7 /REP_DB=WormBase Gene ID /WP=CE03505 /GEN=gbh-2 /TR=Q21526 /GB=CAA91416.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=gamma-butyrobetaine,2-oxoglutarate dioxygenase
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_063392(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063392 NCBI Caenorhabditis elegans Gamma Butyrobetaine Hydroxylase family member (gbh-2) (gbh-2) mRNA, complete cds. 11/11 None
SNAP00000015532 ENSEMBL cdna:SNAP chromosome:CEL140:II:8485936:8487431:1 11/11 None
GENEFINDER00000015547 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:8485936:8487431:1 11/11 None
M05D6.7 ENSEMBL cdna:known chromosome:CEL140:II:8485860:8487431:1 gene:M05D6.7 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:8485932-8487428(+) 100.0 100.0
Public Domain and Genome References
Gene Title gamma-butyrobetaine,2-oxoglutarate dioxygenase
Gene Symbol gbh-2
Ensembl M05D6.7
Entrez Gene 174358 Entrez gene
SwissProt Q21526 EMBL-EBI
WormBase CE35896 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFA.19638.1.S1_AT similar to Trimethyllysine dioxygenase, mitochondrial precursor (Epsilon-trimethyllysine 2-oxoglutarate dioxygenase) (TML-alpha-ketoglutarate dioxygenase) (TML hydroxylase) (TML dioxygenase) (TMLD) cfa
CANINE_2:CFA.19638.1.S1_S_AT similar to Trimethyllysine dioxygenase, mitochondrial precursor (Epsilon-trimethyllysine 2-oxoglutarate dioxygenase) (TML-alpha-ketoglutarate dioxygenase) (TML hydroxylase) (TML dioxygenase) (TMLD) cfa
DROSGENOME1:150261_AT dm
DROSOPHILA_2:1638038_AT dm
CHICKEN:GGA.18010.1.S1_AT trimethyllysine hydroxylase, epsilon gga
CHICKEN:GGAAFFX.4642.1.S1_AT trimethyllysine hydroxylase, epsilon gga
HG-U133_PLUS_2:218790_S_AT trimethyllysine hydroxylase, epsilon hs
HG-U133A:218790_S_AT trimethyllysine hydroxylase, epsilon hs
HG-U133A_2:218790_S_AT trimethyllysine hydroxylase, epsilon hs
HU35KSUBC:RC_W93289_AT trimethyllysine hydroxylase, epsilon hs
HU35KSUBC:RC_N67550_AT trimethyllysine hydroxylase, epsilon hs
HU35KSUBC:RC_AA130866_AT trimethyllysine hydroxylase, epsilon hs
U133_X3P:G8922624_3P_A_AT trimethyllysine hydroxylase, epsilon hs
U133_X3P:HS2.103816.2.A1_3P_S_AT trimethyllysine hydroxylase, epsilon hs
HG-U133_PLUS_2:1554206_AT trimethyllysine hydroxylase, epsilon hs
HG-U133_PLUS_2:222744_S_AT trimethyllysine hydroxylase, epsilon hs
HG-U133B:222744_S_AT trimethyllysine hydroxylase, epsilon hs
HG-U95C:53233_AT trimethyllysine hydroxylase, epsilon hs
HG-U95B:56212_AT trimethyllysine hydroxylase, epsilon hs
HG-U95B:46066_AT Trimethyllysine hydroxylase, epsilon hs
HG-U95D:78419_I_AT Trimethyllysine hydroxylase, epsilon hs
MOUSE430_2:1420727_A_AT trimethyllysine hydroxylase, epsilon mm
MOE430A:1420727_A_AT trimethyllysine hydroxylase, epsilon mm
MOUSE430A_2:1420727_A_AT trimethyllysine hydroxylase, epsilon mm
MOUSE430_2:1452500_AT trimethyllysine hydroxylase, epsilon mm
MOUSE430A_2:1452500_AT trimethyllysine hydroxylase, epsilon mm
MOE430A:1452500_AT trimethyllysine hydroxylase, epsilon mm
MOUSE430_2:1420725_AT trimethyllysine hydroxylase, epsilon mm
MOE430A:1420725_AT trimethyllysine hydroxylase, epsilon mm
MOUSE430A_2:1420725_AT trimethyllysine hydroxylase, epsilon mm
MOUSE430_2:1420726_X_AT trimethyllysine hydroxylase, epsilon mm
MOE430A:1420726_X_AT trimethyllysine hydroxylase, epsilon mm
MOUSE430A_2:1420726_X_AT trimethyllysine hydroxylase, epsilon mm
MG-U74BV2:117077_AT trimethyllysine hydroxylase, epsilon mm
MG-U74CV2:138802_AT trimethyllysine hydroxylase, epsilon mm
MOE430B:1446546_AT trimethyllysine hydroxylase, epsilon mm
MOUSE430_2:1446546_AT trimethyllysine hydroxylase, epsilon mm
RG-U34B:RC_AI011607_AT trimethyllysine hydroxylase, epsilon rn
RAE230A:1387357_AT trimethyllysine hydroxylase, epsilon rn
RAT230_2:1387357_AT trimethyllysine hydroxylase, epsilon rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
45329 carnitine biosynthesis inferred from sequence similarity QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5623 cell inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
16491 oxidoreductase activity inferred from electronic annotation QuickGO AmiGO
16702 oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA91416 Hypothetical protein M05D6.7 [Caenorhabditis elegans] ref|NP_495793.2| Gamma Butyrobetaine Hydroxylase family member (gbh-2) [Caenorhabditis elegans] 0.0
blast CAE57630 Hypothetical protein CBG00615 [Caenorhabditis briggsae] 1.0E-158
blast CAE57630 Hypothetical protein CBG00615 [Caenorhabditis briggsae] 1.0E-156
blast CAA91416 Hypothetical protein M05D6.7 [Caenorhabditis elegans] ref|NP_495793.2| Gamma Butyrobetaine Hydroxylase family member (gbh-2) [Caenorhabditis elegans] 1.0E-120
blast CAE57630 Hypothetical protein CBG00615 [Caenorhabditis briggsae] 3.0E-93
blast XP_853649 PREDICTED: similar to Trimethyllysine dioxygenase, mitochondrial precursor (Epsilon-trimethyllysine 2-oxoglutarate dioxygenase) (TML-alpha-ketoglutarate dioxygenase) (TML hydroxylase) (TML dioxygenase) (TMLD) isoform 2 [Canis familiaris] 4.0E-54
Protein Domains
Database ID Description E-Value
Pfam IPR004994 EMBL-EBI Gamma-butyrobetaine hydroxylase 1.4E-38
Pfam IPR004994 EMBL-EBI Gamma-butyrobetaine hydroxylase 2.3E-113
Pfam IPR004994 EMBL-EBI Gamma-butyrobetaine hydroxylase 1.0E-126
Pfam IPR004994 EMBL-EBI Gamma-butyrobetaine hydroxylase 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:193914_AT
gacgaacctgcatacgaagacactgcttacggaagcgatgaaattgggcctcataccgat
ggtacatattttgatcagacacctggaattcaagtgttccattgtctcacacctgcaaaa
actggcggagatacggttttggtagattcgttttattgcgctgagaagttgagaaacgaa
agcccagaagattttgagatactttgcaatactaagatatctcatcactatcttgaaggt
tctccaccaggttcttctattcacagtgtcagtttagaaaaaccagtaattgaaagaaat
tcctttggaaatattacacaaattaggtttaatccctatgatcgcgctccattctcatgt
ctgaattcatctgaagcttccgcagcggaaacaattaaattctatgaagcatatgaaaag
ttctcaaaaatctgccataatccagacaactctatcgagatttctctacgacctggatca
gt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACGAACCTGCATACGAAGACACTG 152 379 544 Antisense
TGAAATTGGGCCTCATACCGATGGT 477 571 582 Antisense
TCAAGTGTTCCATTGTCTCACACCT 300 633 633 Antisense
GTCTCACACCTGCAAAAACTGGCGG 225 469 647 Antisense
GGTAGATTCGTTTTATTGCGCTGAG 532 503 684 Antisense
ATCTTGAAGGTTCTCCACCAGGTTC 512 29 773 Antisense
ACCAGGTTCTTCTATTCACAGTGTC 570 85 789 Antisense
AGGTTTAATCCCTATGATCGCGCTC 537 55 868 Antisense
CGCTCCATTCTCATGTCTGAATTCA 693 255 888 Antisense
TTCATCTGAAGCTTCCGCAGCGGAA 19 689 909 Antisense
AGATTTCTCTACGACCTGGATCAGT 604 65 1001 Antisense
Sequence Source Affymetrix Proprietary Database