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[176403_at]

Description R13A5.12 /REP_DB=WormBase Gene ID /WP=CE21123 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 86      6grp_high1_10_10 > 67      4grp_highest_8_8 > 23      4grp_high_8_8 > 05      6grp_highest_nonorm > 37      6grp_total > 68      4grp_total > 03      6grp_highest_sub > Da      6grp_cgc > 38      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 19981
1 2 3 4 range
A 7289.1
(-2.2)
P 		5086.8
(-2.9)
P 		4757.8
(-3)
P 		24739.2
(3)
P 		19981
B 7431.7
(-2.2)
P 		4883
(-3)
P 		4866.4
(-3)
P 		23783
(3)
P 		18917
C 7230.7
(-2.3)
P 		4862.5
(-3)
P 		4981.6
(-3)
P 		23895.1
(3)
P 		19033
avr 7317.2
(-2.2) 		4944.1
(-3) 		4868.6
(-3) 		24139.1
(3) 		19271

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2506
1 2 3 4 5 6 range
A 5247.8
(-1.1)
P 		5019.3
(-1.8)
P 		4599.7
(-3)
P 		4746.1
(-2.6)
P 		5201.3
(-1.2)
P 		6633.5
(3)
P 		2034
B 5754
(-0.6)
P 		5061.3
(-2.5)
P 		4891
(-2.9)
P 		5226.8
(-2)
P 		4866.4
(-3)
P 		7056.8
(3)
P 		2190
C 5293.7
(-1)
P 		4719.8
(-2.5)
P 		4856.6
(-2.2)
P 		4550.9
(-3)
P 		5275.2
(-1)
P 		6745.3
(3)
P 		2194
avr 5431.8
(-1.1) 		4933.5
(-2.6) 		4782.4
(-3) 		4841.3
(-2.8) 		5114.3
(-2) 		6811.9
(3) 		2030
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3964
1 2 3 4 range
A 2654
(0.7)
P 		1104.2
(-3)
P 		1243.8
(-2.7)
P 		3621.3
(3)
P 		2517
B 2369.9
(-1.1)
P 		1206
(-2.9)
P 		1127.7
(-3)
P 		5068.2
(3)
P 		3941
C 2393.6
(-0.7)
P 		1398
(-3)
P 		1736.2
(-2.2)
P 		4029.1
(3)
P 		2631
avr 2472.5
(-0.5) 		1236.1
(-3) 		1369.2
(-2.7) 		4239.5
(3) 		3003

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1716
1 2 3 4 5 6 range
A 967.4
(-3)
P 		1785.1
(3)
P 		1001.7
(-2.7)
P 		1203.7
(-1.3)
P 		1569.5
(1.4)
P 		1615
(1.8)
P 		818
B 2002.1
(0.4)
P 		1684.7
(-0.9)
P 		1187.7
(-3)
P 		1384.4
(-2.2)
P 		1977.1
(0.3)
P 		2631.4
(3)
P 		1444
C 1962.2
(1.7)
P 		1440.1
(-0.7)
P 		1236.1
(-1.6)
P 		915.2
(-3)
P 		1707
(0.5)
P 		2258
(3)
P 		1343
avr 1643.9
(-0.1) 		1636.6
(-0.1) 		1141.8
(-3) 		1167.8
(-2.8) 		1751.2
(0.6) 		2168.1
(3) 		1026
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176403_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7003
Sequence Type Exemplar sequence
Representative Public ID R13A5.12 NCBI
Target Description R13A5.12 /REP_DB=WormBase Gene ID /WP=CE21123 /SUBMIT=ST.LOUIS /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_066260(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066260 NCBI Caenorhabditis elegans LiPid Depleted family member (lpd-7) (lpd-7) mRNA, complete cds. 11/11 None
SNAP00000038248 ENSEMBL cdna:SNAP chromosome:CEL140:III:7573272:7575058:1 11/11 None
GENEFINDER00000038262 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:7573272:7575058:1 11/11 None
R13A5.12 ENSEMBL cdna:known chromosome:CEL140:III:7573266:7575183:1 gene:R13A5.12 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:7573269-7575056(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol lpd-7
Ensembl R13A5.12
Entrez Gene 176072 Entrez gene
SwissProt Q95Y89 EMBL-EBI
WormBase CE21123 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:250192_AT pescadillo-related at
CANINE_2:CFAAFFX.19833.1.S1_AT similar to pescadillo homolog 1, containing BRCT domain cfa
CANINE_2:CFAAFFX.19836.1.S1_S_AT similar to pescadillo homolog 1, containing BRCT domain cfa
DROSOPHILA_2:1632098_AT dm
DROSGENOME1:154393_AT dm
CHICKEN:GGA.6276.1.S1_AT similar to PES1 protein gga
CHICKEN:GGA.6276.2.S1_A_AT similar to PES1 protein gga
CHICKEN:GGA.6276.3.S1_AT similar to PES1 protein gga
CHICKEN:GGA.6276.3.S1_S_AT similar to PES1 protein gga
CHICKEN:GGAAFFX.22359.1.S1_AT similar to PES1 protein gga
CHICKEN:GGAAFFX.22359.1.S1_S_AT similar to PES1 protein gga
CHICKEN:GGAAFFX.4852.1.S1_AT similar to PES1 protein gga
HG-U133_PLUS_2:236434_AT pescadillo homolog 1, containing BRCT domain (zebrafish) hs
HG-U133B:236434_AT pescadillo homolog 1, containing BRCT domain (zebrafish) hs
HG-U133A_2:202212_AT pescadillo homolog 1, containing BRCT domain (zebrafish) hs
HG-U133A:202212_AT pescadillo homolog 1, containing BRCT domain (zebrafish) hs
HG-U133_PLUS_2:202212_AT pescadillo homolog 1, containing BRCT domain (zebrafish) hs
HG-FOCUS:202212_AT pescadillo homolog 1, containing BRCT domain (zebrafish) hs
HU35KSUBA:U78310_AT pescadillo homolog 1, containing BRCT domain (zebrafish) hs
U133_X3P:G7657454_3P_S_AT pescadillo homolog 1, containing BRCT domain (zebrafish) hs
U133_X3P:G7657454_3P_AT pescadillo homolog 1, containing BRCT domain (zebrafish) hs
U133_X3P:HS.132037.0.A1_3P_AT pescadillo homolog 1, containing BRCT domain (zebrafish) hs
U133_X3P:202212_3P_AT pescadillo homolog 1, containing BRCT domain (zebrafish) hs
HG-U95AV2:41869_AT pescadillo homolog 1, containing BRCT domain (zebrafish) hs
HG-U95C:57058_AT pescadillo homolog 1, containing BRCT domain (zebrafish) hs
HG-U95D:78120_AT pescadillo homolog 1, containing BRCT domain (zebrafish) hs
MU11KSUBA:AA221105_S_AT pescadillo homolog 1, containing BRCT domain (zebrafish) mm
MG-U74CV2:135368_AT pescadillo homolog 1, containing BRCT domain (zebrafish) mm
MG-U74AV2:160788_AT pescadillo homolog 1, containing BRCT domain (zebrafish) mm
MOE430A:1416173_AT pescadillo homolog 1, containing BRCT domain (zebrafish) mm
MOUSE430A_2:1416173_AT pescadillo homolog 1, containing BRCT domain (zebrafish) mm
MOUSE430_2:1416173_AT pescadillo homolog 1, containing BRCT domain (zebrafish) mm
MOE430A:1416172_AT pescadillo homolog 1, containing BRCT domain (zebrafish) mm
MOUSE430A_2:1416172_AT pescadillo homolog 1, containing BRCT domain (zebrafish) mm
MOUSE430_2:1416172_AT pescadillo homolog 1, containing BRCT domain (zebrafish) mm
MU19KSUBC:TC37798_AT Pescadillo homolog 1, containing BRCT domain (zebrafish), mRNA (cDNA clone MGC:18823 IMAGE:4207164) mm
RG-U34B:RC_AA955980_G_AT similar to PES1 protein rn
RG-U34B:RC_AA955980_AT similar to PES1 protein rn
RG-U34C:RC_AI235689_AT similar to PES1 protein rn
RAE230A:1389238_AT similar to PES1 protein rn
RAT230_2:1389238_AT similar to PES1 protein rn
YEAST_2:1772508_AT Nucleolar protein involved in rRNA processing and 60S ribosomal subunit biogenesis; constituent of several different pre-ribosomal particles Sc
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK84463 Lipid depleted protein 7 [Caenorhabditis elegans] ref|NP_498661.1| LiPid Depleted family member (lpd-7) [Caenorhabditis elegans] 0.0
blast CAE64445 Hypothetical protein CBG09152 [Caenorhabditis briggsae] 0.0
blast AAH43950 Pes1-prov protein [Xenopus laevis] 1.0E-104
Protein Domains
Database ID Description E-Value
scop a.4.5.Restriction endonuclease FokI, N-terminal (recognition) domain All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; Restriction endonuclease FokI, N-terminal (recognition) domain 8.19999980926514
Pfam IPR001357 EMBL-EBI BRCT 1.3E-9
Pfam IPR010613 EMBL-EBI Pescadillo, N-terminal 7.3E-44
Pfam IPR010613 EMBL-EBI Pescadillo, N-terminal 1.0E-126
Pfam IPR001357 EMBL-EBI BRCT 1.3E-9
Pfam IPR010613 EMBL-EBI Pescadillo, N-terminal 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:176403_AT
ggaaggaggccctacagatctcaaggccgacagtaaaaatatcagtcaccacgttgtcga
tcggccaatggacaagctggaggtgaatagactttatgtacagccacagtgggtgttcga
ttgtctgaatgctcgcaggaagctgcctacggaaagatacatgccaggagtagctcttcc
gccacatttctcaccatttacatctgagaaggctggagactacattccgttcgaaagatt
ggaagaactcagaagcatgggcaaagacgtgtctgatctcgaagcagcaattccgaagac
gatggacgagttgccaatgcgaagaaaggaggtgaaaccagaaaaaccaaagggtattca
cattgctgttggtcaaatgcacaagaagagcaaagagaagttccacgagactgtcgagaa
gggacaggagttgaagatgcgcgaattgatgatttccaagaagcaccaacgagtgtacca
cagtatgaagaccacgttcaaacgcaatcgcaacgacgctttga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAAGGAGGCCCTACAGATCTCAAG 81 531 1041 Antisense
AATATCAGTCACCACGTTGTCGATC 656 173 1078 Antisense
GGTGTTCGATTGTCTGAATGCTCGC 18 501 1152 Antisense
GAATGCTCGCAGGAAGCTGCCTACG 255 331 1167 Antisense
TACATGCCAGGAGTAGCTCTTCCGC 52 645 1198 Antisense
CCACATTTCTCACCATTTACATCTG 621 275 1222 Antisense
GGCTGGAGACTACATTCCGTTCGAA 49 541 1251 Antisense
AGACGTGTCTGATCTCGAAGCAGCA 372 71 1305 Antisense
GGGTATTCACATTGCTGTTGGTCAA 345 497 1392 Antisense
GAAGCACCAACGAGTGTACCACAGT 134 337 1500 Antisense
AAACGCAATCGCAACGACGCTTTGA 437 125 1540 Antisense
Sequence Source Affymetrix Proprietary Database