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[192872_at] Yeast hypothetical protein YKE0 like

Description R10H10.1 /REP_DB=WormBase Gene ID /WP=CE06292 /TR=Q21915 /GB=CAA94609.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Yeast hypothetical protein YKE0 like
Cluster 6grp_highest_10_10 > 36      6grp_high1_10_10 > 63      4grp_highest_8_8 > 23      4grp_high_8_8 > 13      6grp_highest_nonorm > 55      6grp_total > 63      4grp_total > 02      6grp_highest_sub > 03      6grp_cgc > 92      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1711
1 2 3 4 range
A 1193.6
(-0.9)
P 		1325.3
(-0.4)
P 		708.9
(-3)
P 		2104.7
(3)
P 		1396
B 1266.2
(-2.6)
P 		1195.3
(-3)
P 		1460.8
(-1.5)
P 		2272.8
(3)
P 		1078
C 1356.8
(-2.2)
P 		1203
(-3)
P 		1290.1
(-2.6)
P 		2419.9
(3)
P 		1217
avr 1272.2
(-2.4) 		1241.2
(-2.5) 		1153.3
(-3) 		2265.8
(3) 		1113

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1149
1 2 3 4 5 6 range
A 1337.2
(-2.7)
P 		1280.7
(-3)
P 		2362
(3)
P 		1917.5
(0.5)
P 		1297.6
(-2.9)
P 		1309.8
(-2.8)
P 		1081
B 1392.6
(-3)
P 		1662.6
(-1.3)
P 		2331.3
(3)
P 		1660.5
(-1.3)
P 		1494.8
(-2.3)
P 		1624.1
(-1.5)
P 		939
C 1212.8
(-3)
P 		1639.8
(0.6)
P 		1638.1
(0.6)
P 		1917.4
(3)
P 		1405
(-1.4)
P 		1812.6
(2.1)
P 		705
avr 1314.2
(-3) 		1527.7
(-1.4) 		2110.5
(3) 		1831.8
(0.9) 		1399.1
(-2.4) 		1582.2
(-1) 		796
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 299
1 2 3 4 range
A 434.6
(3)
P 		287.7
(-0.5)
P 		185.3
(-3)
P 		308.1
(-0)
P 		249
B 403.8
(0.4)
P 		295.2
(-3)
P 		338.5
(-1.6)
P 		484.3
(3)
P 		189
C 449.2
(3)
P 		345.9
(-3)
P 		449.6
(3)
P 		408
(0.6)
P 		104
avr 429.2
(3) 		309.6
(-3) 		324.5
(-2.3) 		400.1
(1.5) 		120

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 361
1 2 3 4 5 6 range
A 246.5
(-3)
P 		455.5
(1.7)
P 		514.4
(3)
P 		486.3
(2.4)
P 		391.6
(0.2)
P 		318.9
(-1.4)
P 		268
B 484.6
(-1.4)
P 		553.4
(1.1)
P 		566.1
(1.5)
P 		439.8
(-3)
P 		607.3
(3)
P 		605.6
(2.9)
P 		168
C 449.5
(-1.3)
P 		500.3
(0.1)
P 		416.9
(-2.2)
P 		385.6
(-3)
P 		454.6
(-1.1)
P 		606.8
(3)
P 		221
avr 393.5
(-3) 		503.1
(2.6) 		499.1
(2.4) 		437.2
(-0.8) 		484.5
(1.7) 		510.4
(3) 		117
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192872_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9697
Sequence Type Exemplar sequence
Representative Public ID R10H10.1 NCBI
Target Description R10H10.1 /REP_DB=WormBase Gene ID /WP=CE06292 /TR=Q21915 /GB=CAA94609.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Yeast hypothetical protein YKE0 like
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_069516(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069516 NCBI Caenorhabditis elegans LiPid Depleted family member (lpd-8) (lpd-8) mRNA, complete cds. 11/11 None
SNAP00000020328 ENSEMBL cdna:SNAP chromosome:CEL140:IV:10387389:10388225:1 11/11 None
GENEFINDER00000020344 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:10387389:10388225:1 11/11 None
R10H10.1.2 ENSEMBL cdna:known chromosome:CEL140:IV:10387383:10388246:1 gene:R10H10.1 11/11 None
R10H10.1.1 ENSEMBL cdna:known chromosome:CEL140:IV:10387385:10388287:1 gene:R10H10.1 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:10387409-10388231(+) 100.0 100.0
Public Domain and Genome References
Gene Title Yeast hypothetical protein YKE0 like
Gene Symbol lpd-8
Ensembl R10H10.1
Entrez Gene 177928 Entrez gene
SwissProt Q21915 EMBL-EBI
WormBase CE06292 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:256807_AT nitrogen fixation NifU-like family protein at
CANINE:1597295_AT similar to HIRA interacting protein 5 isoform 2 cfa
CANINE_2:CFAAFFX.5880.1.S1_AT similar to HIRA interacting protein 5 isoform 2 cfa
DROSOPHILA_2:1624571_S_AT dm
CHICKEN:GGA.12168.1.S1_S_AT HIRA interacting protein 5 gga
CHICKEN:GGAAFFX.13222.1.S1_AT HIRA interacting protein 5 gga
HG-U133_PLUS_2:218946_AT HIRA interacting protein 5 hs
HG-U133A:218946_AT HIRA interacting protein 5 hs
HG-U133A_2:218946_AT HIRA interacting protein 5 hs
HU35KSUBB:RC_W81413_AT HIRA interacting protein 5 hs
U133_X3P:G7661719_3P_AT HIRA interacting protein 5 hs
HG-U95B:48529_AT HIRA interacting protein 5 hs
MG-U74AV2:160176_AT histone cell cycle regulation defective interacting protein 5 mm
MOE430A:1418229_S_AT histone cell cycle regulation defective interacting protein 5 mm
MOUSE430A_2:1418229_S_AT histone cell cycle regulation defective interacting protein 5 mm
MOUSE430_2:1418229_S_AT histone cell cycle regulation defective interacting protein 5 mm
MOE430A:1418228_AT histone cell cycle regulation defective interacting protein 5 mm
MOUSE430A_2:1418228_AT histone cell cycle regulation defective interacting protein 5 mm
MOUSE430_2:1418228_AT histone cell cycle regulation defective interacting protein 5 mm
RG-U34B:RC_AI009450_AT histone cell cycle regulation defective interacting protein 5 (predicted) rn
RAE230A:1389162_AT histone cell cycle regulation defective interacting protein 5 (predicted) rn
RAT230_2:1389162_AT histone cell cycle regulation defective interacting protein 5 (predicted) rn
RAE230A:1372348_AT Histone cell cycle regulation defective interacting protein 5 (predicted) rn
RAT230_2:1372348_AT Histone cell cycle regulation defective interacting protein 5 (predicted) rn
RAT230_2:1381478_AT Histone cell cycle regulation defective interacting protein 5 (predicted) rn
RAE230B:1381478_AT Histone cell cycle regulation defective interacting protein 5 (predicted) rn
RG-U34C:RC_AI104502_AT Histone cell cycle regulation defective interacting protein 5 (predicted) rn
YEAST_2:1778033_AT Protein involved in iron metabolism in mitochondria; similar to NifU, which is a protein required for the maturation of the Fe/S clusters of nitrogenase in nitrogen-fixing bacteria Sc
Protein Similarities
Method ID Description E-Value
blast CAA94609 Hypothetical protein R10H10.1 [Caenorhabditis elegans] ref|NP_501917.1| LiPid Depleted family member (lpd-8) [Caenorhabditis elegans] 1.0E-114
blast CAE56867 Hypothetical protein CBG24700 [Caenorhabditis briggsae] 1.0E-108
blast CAE56867 Hypothetical protein CBG24700 [Caenorhabditis briggsae] 1.0E-107
Protein Domains
Database ID Description E-Value
Pfam IPR001075 EMBL-EBI Nitrogen-fixing NifU, C-terminal 5.6E-42
Pfam IPR001075 EMBL-EBI Nitrogen-fixing NifU, C-terminal 5.6E-42
Sequence
Target Sequence 
>C. ELEGANS:192872_AT
tcaggagacacctaatccactttctttaaaatttttacctggtcaacagcttctcccaga
cgcctcgaaaacatacgatttcagctcagcggctacagcaaaacaaagtccacttgctat
aaaacttcttcgagtcgacggagtgaagcgtgtgttcttcggagaagattttgtaactgt
cacgaaatcagatgagactgttgactgggctctcctccgtccggaaatcttctcaacaat
tgctgatcacattcaaaccggaaaacctgtcataaatgaagctgcaactgtttccgacca
agtggaagaagatgatgaagttgtaatgatgatcaaagaaattctagagacacgtatcag
accaatggtacaagaagatggtggagatatcacttatgttggttttgacgatggtgttgt
caaattgaagatgcaaggttcatgcacaggatgtccaagctctggagtcactttaaaaaa
tggaattgagaatatgctcacattctacgtgcctga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAGGAGACACCTAATCCACTTTCT 91 623 72 Antisense
TTTTTACCTGGTCAACAGCTTCTCC 272 673 103 Antisense
CTCCCAGACGCCTCGAAAACATACG 25 233 124 Antisense
AACATACGATTTCAGCTCAGCGGCT 491 137 141 Antisense
ATGAGACTGTTGACTGGGCTCTCCT 586 45 263 Antisense
ATTGCTGATCACATTCAAACCGGAA 137 7 310 Antisense
GCAACTGTTTCCGACCAAGTGGAAG 557 319 355 Antisense
GAGACACGTATCAGACCAATGGTAC 65 393 418 Antisense
AGGTTCATGCACAGGATGTCCAAGC 657 57 507 Antisense
GATGTCCAAGCTCTGGAGTCACTTT 476 407 521 Antisense
ATATGCTCACATTCTACGTGCCTGA 367 21 563 Antisense
Sequence Source Affymetrix Proprietary Database