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[189949_at] H(beta)58 protein

Description T20D3.7 /REP_DB=WormBase Gene ID /WP=CE03675 /TR=SW:O01258 /GB=CAA92489.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=H(beta)58 protein
Cluster 6grp_highest_10_10 > 45      6grp_high1_10_10 > 53      4grp_highest_8_8 > 54      4grp_high_8_8 > 09      6grp_highest_nonorm > 73      6grp_total > 30      4grp_total > 23      6grp_cgc > 72      6grp_high1_sub > 03      6grp_cgc_sub > 02      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 351
1 2 3 4 range
A 580.3
(0.8)
P 		369.9
(-3)
P 		369
(-3)
P 		698.4
(3)
P 		329
B 625.8
(2.8)
P 		481.7
(-2)
P 		451.3
(-3)
P 		630.7
(3)
P 		179
C 720.1
(3)
P 		535.2
(-1.9)
P 		491.8
(-3)
P 		534.1
(-1.9)
P 		228
avr 642.1
(3) 		462.3
(-2.3) 		437.4
(-3) 		621.1
(2.4) 		205

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 200
1 2 3 4 5 6 range
A 531.7
(-3)
P 		694
(3)
P 		570.7
(-1.6)
P 		645.5
(1.2)
P 		555.7
(-2.1)
P 		536.6
(-2.8)
P 		162
B 656.2
(1.6)
P 		591.6
(-1.3)
P 		686.3
(3)
P 		552.7
(-3)
P 		580.4
(-1.8)
P 		589.6
(-1.3)
P 		134
C 541.6
(-1.4)
P 		631.1
(1.5)
P 		648.5
(2.1)
P 		676.8
(3)
P 		493.6
(-3)
P 		653.5
(2.2)
P 		183
avr 576.5
(-0.9) 		638.9
(3) 		635.2
(2.8) 		625
(2.1) 		543.2
(-3) 		593.2
(0.1) 		96
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 158
1 2 3 4 range
A 211.3
(3)
P 		80.3
(-3)
P 		96.5
(-2.3)
P 		102.2
(-2)
P 		131
B 199.6
(3)
P 		119
(-2.1)
P 		104.6
(-3)
P 		134.4
(-1.1)
P 		95
C 238.4
(3)
P 		153.9
(-0.4)
P 		171.4
(0.3)
P 		90.1
(-3)
P 		148
avr 216.4
(3) 		117.7
(-2.5) 		124.2
(-2.1) 		108.9
(-3) 		108

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 149
1 2 3 4 5 6 range
A 98
(-3)
P 		246.8
(3)
P 		124.3
(-1.9)
P 		163.7
(-0.4)
P 		167.7
(-0.2)
P 		130.6
(-1.7)
P 		149
B 228.3
(2.5)
P 		196.9
(0.4)
P 		166.7
(-1.6)
P 		146.4
(-3)
P 		235.8
(3)
P 		219.9
(1.9)
P 		89
C 200.7
(1.7)
P 		192.6
(1.1)
P 		165.1
(-0.9)
P 		136.1
(-3)
P 		159.7
(-1.3)
P 		218.8
(3)
P 		83
avr 175.7
(-0.4) 		212.1
(3) 		152
(-2.7) 		148.7
(-3) 		187.7
(0.7) 		189.8
(0.9) 		63
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189949_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9357
Sequence Type Exemplar sequence
Representative Public ID T20D3.7 NCBI
Target Description T20D3.7 /REP_DB=WormBase Gene ID /WP=CE03675 /TR=SW:O01258 /GB=CAA92489.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=H(beta)58 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_069243(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069243 NCBI Caenorhabditis elegans related to yeast Vacuolar Protein Sorting factor family member (vps-26) (vps-26) mRNA, complete cds. 10/11 None
SNAP00000040162 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9339778:9341611:-1 11/11 None
GENEFINDER00000040165 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9339778:9343111:-1 10/11 None
T20D3.7 ENSEMBL cdna:known chromosome:CEL140:IV:9339400:9341767:-1 gene:T20D3.7 10/11 A 
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:9340164-9341617(-) 90.53 100.0
Public Domain and Genome References
Gene Title H(beta)58 protein
Gene Symbol vps-26
Ensembl T20D3.7
Entrez Gene 177764 Entrez gene
SwissProt O01258 EMBL-EBI
WormBase CE28684 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:248221_AT vacuolar protein sorting-associated protein 26, putative / VPS26, putative at
CANINE_2:CFAAFFX.15336.1.S1_AT similar to Vacuolar protein sorting 26 homolog (VPS26 protein homolog) cfa
DROSOPHILA_2:1630839_AT dm
DROSGENOME1:153136_AT dm
CHICKEN:GGA.13311.1.S1_S_AT similar to RIKEN cDNA 1810012I05 gga
U133_X3P:HS.278242.5.A1_3P_AT vacuolar protein sorting 26 homolog B (yeast) hs
HG-U133_PLUS_2:230306_AT vacuolar protein sorting 26 homolog B (yeast) hs
HG-U133B:230306_AT vacuolar protein sorting 26 homolog B (yeast) hs
HG-U95E:90747_AT vacuolar protein sorting 26 homolog B (yeast) hs
HG-U133_PLUS_2:225483_AT Hypothetical protein MGC10485 hs
HG-U133B:225483_AT Hypothetical protein MGC10485 hs
HG-U95B:44975_AT Hypothetical protein MGC10485 hs
HG-U95B:56536_AT Hypothetical protein MGC10485 hs
HU35KSUBA:RC_AA422047_AT Hypothetical protein MGC10485 hs
U133_X3P:HS.278242.6.S1_3P_AT Hypothetical protein MGC10485 hs
MG-U74AV2:99139_AT RIKEN cDNA 2310075A12 gene mm
MOE430A:1428247_AT RIKEN cDNA 2310075A12 gene mm
MOUSE430A_2:1428247_AT RIKEN cDNA 2310075A12 gene mm
MOUSE430_2:1428247_AT RIKEN cDNA 2310075A12 gene mm
MOE430A:1428246_AT RIKEN cDNA 2310075A12 gene mm
MOUSE430A_2:1428246_AT RIKEN cDNA 2310075A12 gene mm
MOUSE430_2:1428246_AT RIKEN cDNA 2310075A12 gene mm
MOE430B:1453762_AT RIKEN cDNA 2310075A12 gene mm
MOUSE430_2:1453762_AT RIKEN cDNA 2310075A12 gene mm
MU19KSUBC:TC39422_AT RIKEN cDNA 2310075A12 gene, mRNA (cDNA clone IMAGE:3603626) mm
RG-U34B:RC_AA944818_AT similar to RIKEN cDNA 2310075A12 rn
RAE230B:1395289_AT similar to RIKEN cDNA 2310075A12 rn
RAT230_2:1395289_AT similar to RIKEN cDNA 2310075A12 rn
RAE230B:1378149_AT similar to RIKEN cDNA 2310075A12 rn
RAT230_2:1378149_AT similar to RIKEN cDNA 2310075A12 rn
RAE230B:1379273_AT similar to RIKEN cDNA 2310075A12 rn
RAT230_2:1379273_AT similar to RIKEN cDNA 2310075A12 rn
RG-U34B:RC_AI059764_AT Similar to RIKEN cDNA 2310075A12 rn
YEAST_2:1780126_AT Vacuolar protein sorting protein that forms part of the multimeric membrane-associated retromer complex along with Vps35p, Vps29p, Vps17p, and Vps5p; essential for endosome-to-Golgi retrograde protein transport Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6886 intracellular protein transport inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA92489 Hypothetical protein T20D3.7 [Caenorhabditis elegans] ref|NP_501644.1| related to yeast Vacuolar Protein Sorting factor family member (vps-26) [Caenorhabditis elegans] 0.0
blast O01258 Vacuolar protein sorting 26 homolog (VPS26 protein homolog) 0.0
blast CAE74042 Hypothetical protein CBG21693 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR005377 EMBL-EBI Vacuolar protein sorting-associated protein 26 1.0E-126
Pfam IPR005377 EMBL-EBI Vacuolar protein sorting-associated protein 26 1.0E-126
Pfam IPR009450 EMBL-EBI Phosphatidylinositol N-acetylglucosaminyltransferase 6.2E-111
Pfam IPR005377 EMBL-EBI Vacuolar protein sorting-associated protein 26 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000040165 6 45-67,77-99,112-131,186-203,210-232,237-259
Sequence
Target Sequence 
>C. ELEGANS:189949_AT
gagatacttcttacgtgtcactgttatcagaaggctcacagatttgacaaaagagctcga
tttggtcgttcacgcgttgagtagctatccagataacgataaatcaattaaaatggaagt
aggaatcgaagattgtttacacattgaatttgaatataacaagaacaaatatcatcttca
agatgtgatcgttggaaaaatctatttcctgcttgttcgtatcaaaattaagtacatgga
aattgcgattctgaagacagaagtcgtcggatctggtccaaatacattcaaagaatctga
aactgtcgcgaaatttgagattatggatggagcaccagttcgtggagaatccattccaat
cagattgttcctggctggatatgatttggcgccatcaatgagagacgttggaaaaaagtt
ttcagttaaatactttttgaatttggttcttgtagacgaagaggatcgcagatatttcaa
gcaacaggcgagtttttatgttattgagacgcagaaaaaatcttcttttgaaatccacgt
tg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGATACTTCTTACGTGTCACTGTT 441 397 393 Antisense
GTGTCACTGTTATCAGAAGGCTCAC 659 485 407 Antisense
AAGAGCTCGATTTGGTCGTTCACGC 323 153 443 Antisense
GTCGTTCACGCGTTGAGTAGCTATC 286 473 457 Antisense
AAAAATCTATTTCCTGCTTGTTCGT 570 129 588 Antisense
GAAGTCGTCGGATCTGGTCCAAATA 570 333 652 Antisense
GGAGCACCAGTTCGTGGAGAATCCA 176 521 721 Antisense
CCAATCAGATTGTTCCTGGCTGGAT 452 277 748 Antisense
GGCTGGATATGATTTGGCGCCATCA 311 541 765 Antisense
GGCGCCATCAATGAGAGACGTTGGA 678 541 780 Antisense
AAATCTTCTTTTGAAATCCACGTTG 438 115 910 Antisense
Sequence Source Affymetrix Proprietary Database