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[175232_at] H(beta)58 protein

Description AU114955_rc /REP_DB=TREMBL Accession /GB=AU114955 /CHR=4 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk724a5 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 92      6grp_high1_10_10 > 39      4grp_highest_8_8 > 36      4grp_high_8_8 > 0      6grp_highest_nonorm > 74      6grp_total > 19      4grp_total > 07      6grp_highest_sub > Cu      6grp_cgc > 07      6grp_high1_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 302
1 2 3 4 range
A 704.4
(2.8)
P 		469
(-3)
P 		713.6
(3)
P 		704.7
(2.8)
P 		245
B 693.9
(3)
P 		556.1
(-0.4)
P 		453.8
(-3)
P 		620.5
(1.2)
P 		240
C 756.1
(3)
P 		561.8
(-3)
P 		721.8
(1.9)
P 		618.5
(-1.2)
P 		194
avr 718.1
(3) 		529
(-3) 		629.7
(0.2) 		647.9
(0.8) 		189

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 283
1 2 3 4 5 6 range
A 764.1
(1.2)
P 		613.4
(-2.4)
P 		839.4
(3)
P 		586.1
(-3)
P 		817.1
(2.5)
P 		655.9
(-1.3)
P 		253
B 868.8
(3)
P 		666
(-2.1)
P 		685.6
(-1.6)
P 		630.2
(-3)
P 		659.8
(-2.3)
P 		818.5
(1.7)
P 		239
C 764.3
(1.6)
P 		683.9
(-1.4)
P 		638.9
(-3)
P 		803.6
(3)
P 		747.8
(1)
P 		701.3
(-0.7)
P 		165
avr 799.1
(3) 		654.4
(-3) 		721.3
(-0.2) 		673.3
(-2.2) 		741.6
(0.6) 		725.2
(-0.1) 		145
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 155
1 2 3 4 range
A 256.5
(3)
P 		101.8
(-3)
P 		186.5
(0.3)
P 		103.2
(-2.9)
P 		155
B 221.3
(3)
P 		137.3
(-1.3)
P 		105.2
(-3)
P 		132.2
(-1.6)
P 		116
C 250.3
(2.9)
P 		161.5
(-0.7)
P 		251.6
(3)
P 		104.3
(-3)
P 		147
avr 242.7
(3) 		133.5
(-2.1) 		181.1
(0.1) 		113.2
(-3) 		130

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 164
1 2 3 4 5 6 range
A 140.9
(-3)
P 		218.2
(1.4)
P 		182.8
(-0.6)
P 		148.6
(-2.6)
P 		246.6
(3)
P 		159.7
(-1.9)
P 		106
B 302.3
(2.9)
P 		221.7
(-0.6)
P 		166.5
(-3)
P 		166.9
(-3)
P 		268.1
(1.4)
P 		305.2
(3)
P 		139
C 283.3
(3)
P 		208.7
(-0.7)
P 		162.6
(-3)
P 		161.6
(-3)
P 		242
(1)
P 		234.8
(0.6)
P 		122
avr 242.2
(2.4) 		216.2
(0.7) 		170.6
(-2.3) 		159
(-3) 		252.2
(3) 		233.2
(1.8) 		93
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175232_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21319
Sequence Type Exemplar sequence
Representative Public ID AU114955 NCBI
Target Description AU114955_rc /REP_DB=TREMBL Accession /GB=AU114955 /CHR=4 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk724a5 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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(11)
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. 11/11 None
T20D3.7 ENSEMBL cdna:known chromosome:CEL140:IV:9339400:9341767:-1 gene:T20D3.7 11/11 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:9339471-9339747(-) 98.57 98.57
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
Sequence
Target Sequence 
>C. ELEGANS:175232_AT
tgaaaatggcccgtatttgttcaaaaaagtttcgcctattcttcccgatccaaattttat
taaaattgcctattctgtgatgaaaatctaaatattctcttatttatttcccattattat
attacagccccgtttgttttgtttctcaaaagccagttttcatactaccgatgtttgtgt
ttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGAAAATGGCCCGTATTTGTTCAAA 132 573 80 Antisense
CTATTCTTCCCGATCCAAATTTTAT 674 221 115 Antisense
ATTAAAATTGCCTATTCTGTGATGA 589 11 138 Antisense
TTGCCTATTCTGTGATGAAAATCTA 37 697 145 Antisense
TATTCTCTTATTTATTTCCCATTAT 80 665 172 Antisense
TCTCTTATTTATTTCCCATTATTAT 333 613 175 Antisense
CCCATTATTATATTACAGCCCCGTT 295 257 189 Antisense
TATATTACAGCCCCGTTTGTTTTGT 189 661 197 Antisense
TTTGTTTCTCAAAAGCCAGTTTTCA 548 665 217 Antisense
AAGCCAGTTTTCATACTACCGATGT 571 135 229 Antisense
TTCATACTACCGATGTTTGTGTTTT 439 687 238 Antisense
Sequence Source Affymetrix Proprietary Database