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[193077_at] high-density lipoprotein-binding protein

Description C08H9.2 /REP_DB=WormBase Gene ID /WP=CE23530 /TR=Q17832 /GB=CAA91144.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=high-density lipoprotein-binding protein
Cluster 6grp_highest_10_10 > 70      6grp_high1_10_10 > 08      4grp_highest_8_8 > 11      4grp_high_8_8 > 47      6grp_highest_nonorm > 01      6grp_total > 19      4grp_total > 48      6grp_highest_sub > De      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1257
1 2 3 4 range
A 2444
(1.4)
P 		2522.7
(2.1)
P 		2624.4
(3)
P 		1958.1
(-3)
P 		666
B 2301.9
(-3)
P 		2431.6
(-1.8)
P 		2518.6
(-0.9)
P 		2931.8
(3)
P 		630
C 2293.4
(-3)
P 		3051.6
(1.9)
P 		3215.5
(3)
P 		2526.5
(-1.5)
P 		922
avr 2346.4
(-3) 		2668.6
(1.4) 		2786.2
(3) 		2472.1
(-1.3) 		440

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3628
1 2 3 4 5 6 range
A 1928.3
(0.3)
P 		2545.6
(3)
P 		1187.5
(-3)
P 		2305.1
(1.9)
P 		1664.9
(-0.9)
P 		2411.6
(2.4)
P 		1358
B 1866.7
(3)
P 		1499.8
(0.2)
P 		1218.5
(-1.9)
P 		1594.8
(0.9)
P 		1327.1
(-1.1)
P 		1078.9
(-3)
P 		788
C 4707.2
(3)
P 		1266.3
(-2.8)
P 		2535.3
(-0.7)
P 		1277.4
(-2.8)
P 		3258.2
(0.5)
P 		1166
(-3)
P 		3541
avr 2834.1
(3) 		1770.6
(-2) 		1647.1
(-2.6) 		1725.8
(-2.2) 		2083.4
(-0.5) 		1552.2
(-3) 		1282
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 834
1 2 3 4 range
A 889.9
(3)
P 		547.6
(-0.4)
P 		686.1
(1)
P 		286.6
(-3)
P 		603
B 734.1
(3)
P 		600.6
(-2.3)
P 		583.6
(-3)
P 		624.8
(-1.4)
P 		151
C 759.2
(-0.1)
P 		877.3
(0.9)
P 		1120.7
(3)
P 		426
(-3)
P 		695
avr 794.4
(3) 		675.2
(0.9) 		796.8
(3) 		445.8
(-3) 		351

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1488
1 2 3 4 5 6 range
A 355.5
(-2.1)
P 		905.4
(3)
P 		258.6
(-3)
P 		584.6
(0)
P 		502.4
(-0.7)
P 		587.2
(0)
P 		647
B 649.5
(3)
P 		499.2
(0.4)
P 		295.9
(-3)
P 		422.4
(-0.9)
P 		539.2
(1.1)
P 		402.3
(-1.2)
P 		354
C 1744.8
(3)
P 		386.4
(-2.5)
P 		645.3
(-1.4)
P 		256.9
(-3)
P 		1054.3
(0.2)
P 		390.3
(-2.5)
P 		1488
avr 916.6
(3) 		597
(-0.7) 		399.9
(-3) 		421.3
(-2.8) 		698.6
(0.5) 		459.9
(-2.3) 		517
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193077_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3694
Sequence Type Exemplar sequence
Representative Public ID C08H9.2 NCBI
Target Description C08H9.2 /REP_DB=WormBase Gene ID /WP=CE23530 /TR=Q17832 /GB=CAA91144.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=high-density lipoprotein-binding protein
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_063735(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063735 NCBI Caenorhabditis elegans C08H9.2 (C08H9.2) mRNA, complete cds. 11/11 None
SNAP00000001380 ENSEMBL cdna:SNAP chromosome:CEL140:II:9886953:9890852:-1 11/11 None
GENEFINDER00000001387 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:9886953:9892408:-1 11/11 None
C08H9.2 ENSEMBL cdna:known chromosome:CEL140:II:9886453:9890992:-1 gene:C08H9.2 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
chrII:9886949-9890849(-) 100.0 100.0
Public Domain and Genome References
Gene Title high-density lipoprotein-binding protein
Ensembl C08H9.2
Entrez Gene 174543 Entrez gene
SwissProt Q17832 EMBL-EBI
WormBase CE23530 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFA.2026.1.S1_AT similar to high density lipoprotein binding protein cfa
CANINE_2:CFA.20808.1.S1_S_AT similar to high density lipoprotein binding protein cfa
CANINE_2:CFAAFFX.20049.1.S1_S_AT similar to high density lipoprotein binding protein cfa
DROSOPHILA_2:1628416_S_AT Dodeca-satellite-binding protein 1 dm
DROSGENOME1:154042_AT Dodeca-satellite-binding protein 1 dm
CHICKEN:GGA.9199.1.S1_AT high density lipoprotein binding protein (vigilin) gga
CHICKEN:GGA.9199.1.S2_AT high density lipoprotein binding protein (vigilin) gga
HG-U133_PLUS_2:200643_AT high density lipoprotein binding protein (vigilin) hs
HG-FOCUS:200643_AT high density lipoprotein binding protein (vigilin) hs
HG-U133A:200643_AT high density lipoprotein binding protein (vigilin) hs
HG-U133A_2:200643_AT high density lipoprotein binding protein (vigilin) hs
HU35KSUBC:RC_F02903_AT high density lipoprotein binding protein (vigilin) hs
HU35KSUBC:RC_AA010043_AT high density lipoprotein binding protein (vigilin) hs
HU35KSUBD:RC_H28100_S_AT high density lipoprotein binding protein (vigilin) hs
HUGENEFL:M64098_AT high density lipoprotein binding protein (vigilin) hs
U133_X3P:HS.283473.1.A1_3P_AT high density lipoprotein binding protein (vigilin) hs
U133_X3P:HS.283473.0.S1_3P_A_AT high density lipoprotein binding protein (vigilin) hs
HG-U133A_2:221767_X_AT high density lipoprotein binding protein (vigilin) hs
HG-U133_PLUS_2:221767_X_AT high density lipoprotein binding protein (vigilin) hs
HG-U133A:221767_X_AT high density lipoprotein binding protein (vigilin) hs
HG-U133_PLUS_2:222916_S_AT high density lipoprotein binding protein (vigilin) hs
HG-U133B:222916_S_AT high density lipoprotein binding protein (vigilin) hs
HG-U133_PLUS_2:225012_AT high density lipoprotein binding protein (vigilin) hs
HG-U133B:225012_AT high density lipoprotein binding protein (vigilin) hs
HG-U95AV2:31504_AT high density lipoprotein binding protein (vigilin) hs
HG-U95B:45523_S_AT high density lipoprotein binding protein (vigilin) hs
HG-U95B:45524_R_AT high density lipoprotein binding protein (vigilin) hs
HG-U95B:50246_AT high density lipoprotein binding protein (vigilin) hs
HG-U133_PLUS_2:235624_AT High density lipoprotein binding protein (vigilin) hs
HG-U133B:235624_AT High density lipoprotein binding protein (vigilin) hs
HG-U133_PLUS_2:240152_AT High density lipoprotein binding protein (vigilin) hs
HG-U133B:240152_AT High density lipoprotein binding protein (vigilin) hs
HG-U95C:60394_AT High density lipoprotein binding protein (vigilin) hs
HG-U95E:74193_AT High density lipoprotein binding protein (vigilin) hs
HU35KSUBC:RC_AA599011_F_AT High density lipoprotein binding protein (vigilin) hs
U133_X3P:HS.127922.0.A1_3P_AT High density lipoprotein binding protein (vigilin) hs
U133_X3P:HS.131833.0.A1_3P_AT High density lipoprotein binding protein (vigilin) hs
MOE430A:1415988_AT high density lipoprotein (HDL) binding protein mm
MOUSE430A_2:1415988_AT high density lipoprotein (HDL) binding protein mm
MOUSE430_2:1415988_AT high density lipoprotein (HDL) binding protein mm
MOE430A:1415987_AT high density lipoprotein (HDL) binding protein mm
MOUSE430_2:1415987_AT high density lipoprotein (HDL) binding protein mm
MOUSE430A_2:1415987_AT high density lipoprotein (HDL) binding protein mm
MOUSE430_2:1419869_S_AT high density lipoprotein (HDL) binding protein mm
MOE430A:1419869_S_AT high density lipoprotein (HDL) binding protein mm
MOUSE430A_2:1419869_S_AT high density lipoprotein (HDL) binding protein mm
MOE430A:1449615_S_AT high density lipoprotein (HDL) binding protein mm
MOUSE430A_2:1449615_S_AT high density lipoprotein (HDL) binding protein mm
MOUSE430_2:1449615_S_AT high density lipoprotein (HDL) binding protein mm
MG-U74AV2:96359_AT high density lipoprotein (HDL) binding protein mm
MG-U74BV2:107005_AT high density lipoprotein (HDL) binding protein mm
MG-U74BV2:113182_AT high density lipoprotein (HDL) binding protein mm
MOE430A:1419806_AT high density lipoprotein (HDL) binding protein mm
MOUSE430A_2:1419806_AT high density lipoprotein (HDL) binding protein mm
MOUSE430_2:1419806_AT high density lipoprotein (HDL) binding protein mm
MOE430B:1443546_AT High density lipoprotein (HDL) binding protein, mRNA (cDNA clone MGC:36446 IMAGE:5354293) mm
MOUSE430_2:1443546_AT High density lipoprotein (HDL) binding protein, mRNA (cDNA clone MGC:36446 IMAGE:5354293) mm
MU19KSUBB:TC26995_AT High density lipoprotein (HDL) binding protein, mRNA (cDNA clone MGC:36446 IMAGE:5354293) mm
MU19KSUBB:TC29217_AT High density lipoprotein (HDL) binding protein, mRNA (cDNA clone MGC:36446 IMAGE:5354293) mm
MU19KSUBB:TC34555_AT High density lipoprotein (HDL) binding protein, mRNA (cDNA clone MGC:36446 IMAGE:5354293) mm
MU11KSUBB:W98758_R_AT High density lipoprotein (HDL) binding protein, mRNA (cDNA clone MGC:36446 IMAGE:5354293) mm
MU11KSUBB:W98758_S_AT High density lipoprotein (HDL) binding protein, mRNA (cDNA clone MGC:36446 IMAGE:5354293) mm
RG-U34A:U90725_S_AT high density lipoprotein binding protein rn
RG-U34B:RC_AA955391_S_AT high density lipoprotein binding protein rn
RG-U34C:RC_AI177007_S_AT high density lipoprotein binding protein rn
RG-U34C:RC_AI178939_AT high density lipoprotein binding protein rn
RAE230A:1398859_AT high density lipoprotein binding protein rn
RAT230_2:1398859_AT high density lipoprotein binding protein rn
RAE230A:1375309_AT High density lipoprotein binding protein rn
RAT230_2:1375309_AT High density lipoprotein binding protein rn
RAE230B:1382974_AT High density lipoprotein binding protein rn
RAT230_2:1382974_AT High density lipoprotein binding protein rn
RAE230A:1388918_AT High density lipoprotein binding protein rn
RAT230_2:1388918_AT High density lipoprotein binding protein rn
RG-U34B:RC_AI009079_AT High density lipoprotein binding protein rn
RG-U34C:RC_AI235278_AT High density lipoprotein binding protein rn
YEAST_2:1772514_AT Essential RNA-binding G protein effector of mating response pathway, predominantly associated with nuclear envelope and ER, interacts in mRNA-dependent manner with translating ribosomes via multiple KH domains, similar to vertebrate vigilins Sc
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA91144 Hypothetical protein C08H9.2 [Caenorhabditis elegans] ref|NP_496136.1| C08H9.2 [Caenorhabditis elegans] 0.0
blast CAE57941 Hypothetical protein CBG00996 [Caenorhabditis briggsae] 0.0
blast NP_598569 high density lipoprotein binding protein [Mus musculus] gb|AAH21765.1| High density lipoprotein binding protein [Mus musculus] gb|AAH25648.1| High density lipoprotein binding protein [Mus musculus] gb|AAH35301.1| High density lipoprotein binding protein [Mus musculus] dbj|BAE32283.1| unnamed protein product [Mus musculus] gb|AAH27779.1| High density lipoprotein binding protein [Mus musculus] gb|AAH23806.1| High density lipoprotein binding protein [Mus musculus] gb|AAH27788.1| High density lipoprotein binding protein [Mus musculus] sp|Q8VDJ3|VIGLN_MOUSE Vigilin (High density lipoprotein-binding protein) (HDL-binding protein) 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004087 EMBL-EBI KH 6.6E-15
Pfam IPR004087 EMBL-EBI KH 1.6E-8
Pfam IPR004087 EMBL-EBI KH 5.2E-12
Pfam IPR004087 EMBL-EBI KH 5.0E-10
Pfam IPR004087 EMBL-EBI KH 4.6E-13
Pfam IPR004087 EMBL-EBI KH 5.3E-11
Pfam IPR004087 EMBL-EBI KH 4.7E-7
Pfam IPR004087 EMBL-EBI KH 1.5E-13
Pfam IPR004087 EMBL-EBI KH 2.8E-12
Pfam IPR004087 EMBL-EBI KH 1.3E-9
Pfam IPR004087 EMBL-EBI KH 6.6E-15
Pfam IPR004087 EMBL-EBI KH 1.6E-8
Pfam IPR004087 EMBL-EBI KH 5.2E-12
Pfam IPR004087 EMBL-EBI KH 5.0E-10
Pfam IPR004087 EMBL-EBI KH 4.6E-13
Pfam IPR004087 EMBL-EBI KH 5.3E-11
Pfam IPR004087 EMBL-EBI KH 4.7E-7
Pfam IPR004087 EMBL-EBI KH 1.5E-13
Pfam IPR004087 EMBL-EBI KH 2.8E-12
Pfam IPR004087 EMBL-EBI KH 1.3E-9
Sequence
Target Sequence 
>C. ELEGANS:193077_AT
tggacaacgtggagccaccatcactgctctcaaggaaaagtacggtgttatcatcaatgt
accacgagaggatggaaacgaaacgattaccattcaaggatacgaggagaaggctaacga
atgcgccgctgccatcgaagagatgatttctgagctgagatctatgttcactcaagaaat
tagccttgatgccagatatcatccacgtcttattggacaaagaggaaagaacttgaaaaa
ggtcatggaagactatcgtgtcgaaattcgtcttccacgtcaaggagcagaagatccaaa
cttggttgtcgttgcaggaaaagatgaaaatgacgtgtatgattgtatcgatcatttgcg
cgctgaggaagaggagttcttgcttgacaacgtcgagagaacccaatacatgtctccacg
ccaacaagagtcgaacaatacccgtcaccatcagcaaccaacgtctgtccagatgaaggg
agcaccatggcaattggatttgggaagctctgagcaattcccagacatgggaccagcagc
cggatcatctgctgccgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGGACAACGTGGAGCCACCATCACT 29 549 3078 Antisense
AGAAGGCTAACGAATGCGCCGCTGC 480 75 3185 Antisense
ATGCCAGATATCATCCACGTCTTAT 339 41 3266 Antisense
TGTCGAAATTCGTCTTCCACGTCAA 708 555 3336 Antisense
GATCCAAACTTGGTTGTCGTTGCAG 652 415 3370 Antisense
TATCGATCATTTGCGCGCTGAGGAA 275 657 3423 Antisense
GGAGTTCTTGCTTGACAACGTCGAG 218 517 3450 Antisense
GAGAACCCAATACATGTCTCCACGC 171 393 3474 Antisense
CAAGAGTCGAACAATACCCGTCACC 87 181 3502 Antisense
GAAGCTCTGAGCAATTCCCAGACAT 213 343 3581 Antisense
CAGCAGCCGGATCATCTGCTGCCGT 148 205 3611 Antisense
Sequence Source Affymetrix Proprietary Database