[Home] | [Total List]

[193613_s_at] WD domain, G-beta repeat (3 domains)

Description Y76A2B.1 /REP_DB=WormBase Gene ID /WP=CE19273 /GEN=pod-1 /TR=Q9XTG9 /GB=CAA21748.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=WD domain, G-beta repeat (3 domains)
Cluster 6grp_highest_10_10 > 96      6grp_high1_10_10 > 68      4grp_highest_8_8 > 14      4grp_high_8_8 > 22      6grp_highest_nonorm > 93      6grp_total > 69      4grp_total > 16      6grp_highest_sub > Cu      6grp_cgc > 29      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 311
1 2 3 4 range
A 324
(-3)
P 		340.8
(-2.7)
P 		481
(0)
P 		634.9
(3)
P 		311
B 355.5
(-3)
P 		417.9
(-1.5)
P 		437.1
(-1.1)
P 		610
(3)
P 		255
C 338.2
(-3)
P 		427.1
(2.4)
P 		350
(-2.3)
P 		436.1
(3)
P 		98
avr 339.2
(-3) 		395.3
(-1.5) 		422.7
(-0.7) 		560.3
(3) 		221

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 672
1 2 3 4 5 6 range
A 360.5
(-1.5)
P 		528.6
(0)
P 		202.2
(-3)
P 		333.5
(-1.8)
P 		281.5
(-2.3)
P 		844.5
(3)
P 		642
B 310.1
(-0.7)
P 		172.4
(-3)
P 		256.6
(-1.6)
P 		259
(-1.6)
P 		358.9
(0.1)
P 		534.1
(3)
P 		362
C 481.5
(2.7)
P 		264.7
(-1.9)
P 		302.8
(-1.1)
P 		215.1
(-3)
P 		494.6
(3)
P 		471.1
(2.5)
P 		280
avr 384
(-0.8) 		321.9
(-1.9) 		253.9
(-3) 		269.2
(-2.7) 		378.3
(-0.9) 		616.6
(3) 		363
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 57
1 2 3 4 range
A 118
(2.1)
P 		74
(-3)
P 		125.7
(3)
P 		92.9
(-0.8)
P 		52
B 113.4
(-0.5)
P 		103.2
(-2.6)
P 		101.3
(-3)
P 		130
(3)
P 		29
C 111.9
(1.7)
P 		122.8
(3)
P 		122
(2.9)
P 		73.5
(-3)
P 		49
avr 114.4
(2.3) 		100
(-2.6) 		116.3
(3) 		98.8
(-3) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 162
1 2 3 4 5 6 range
A 66.5
(-2.2)
P 		188
(2.3)
P 		44
(-3)
P 		84.6
(-1.5)
P 		85
(-1.5)
P 		205.6
(3)
P 		162
B 107.9
(-0.9)
P 		57.4
(-3)
P 		62.3
(-2.8)
P 		68.6
(-2.5)
P 		145.8
(0.7)
P 		199.2
(3)
P 		142
C 178.5
(3)
P 		80.8
(-1.3)
P 		77.1
(-1.5)
P 		43.3
(-3)
P 		160
(2.2)
P 		157.7
(2.1)
P 		135
avr 117.6
(-0.3) 		108.7
(-0.7) 		61.1
(-3) 		65.5
(-2.8) 		130.3
(0.3) 		187.5
(3) 		126
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193613_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6263
Sequence Type Exemplar sequence
Representative Public ID Y76A2B.1 NCBI
Target Description Y76A2B.1 /REP_DB=WormBase Gene ID /WP=CE19273 /GEN=pod-1 /TR=Q9XTG9 /GB=CAA21748.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=WD domain, G-beta repeat (3 domains)
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_067396(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067396 NCBI Caenorhabditis elegans Polarity and Osmotic sensitivity Defect family member (pod-1) (pod-1) mRNA, complete cds. 11/11 None
Y76A2B.1 ENSEMBL cdna:known chromosome:CEL140:III:13514457:13523626:-1 gene:Y76A2B.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
chrIII:13514936-13523605(-) 100.0 100.0
Public Domain and Genome References
Gene Title WD domain, G-beta repeat (3 domains)
Gene Symbol pod-1
Ensembl Y76A2B.1
Entrez Gene 176784 Entrez gene
SwissProt Q9XTG9 EMBL-EBI
WormBase CE19273 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1641620_S_AT dm
DROSGENOME1:151665_AT dm
DROSGENOME1:142730_AT dm
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5938 cell cortex inferred from direct assay QuickGO AmiGO
51285 cell cortex of cell tip inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
51015 actin filament binding inferred from direct assay QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA21748 Hypothetical protein Y76A2B.1 [Caenorhabditis elegans] emb|CAB07290.1| Hypothetical protein Y76A2B.1 [Caenorhabditis elegans] ref|NP_499797.1| Polarity and Osmotic sensitivity Defect family member (pod-1) [Caenorhabditis elegans] gb|AAD25089.2| POD-1 [Caenorhabditis elegans] 0.0
blast CAE69258 Hypothetical protein CBG15309 [Caenorhabditis briggsae] 0.0
blast AAH98622 Hypothetical protein LOC569563 [Danio rerio] ref|NP_001025407.1| hypothetical protein LOC569563 [Danio rerio] 1.0E-117
Protein Domains
Database ID Description E-Value
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.023
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.13
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.095
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.0045
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.7E-6
Sequence
Target Sequence 
>C. ELEGANS:193613_S_AT
gttggcaccatttatgtcgcctgttggaagtcaaggaatcgcgttccatcagaaactgaa
atgtaacgtgatggctgtcgaatttcaagtttgctggcgcctctcggacaaaaatctgga
gaagattacgttccgtgttccacgtatcaagaaggacgtcttccaagatgacttgttccc
ggattcacttgtcacatgggagcccgtcacgactggaacaaaatggatgctcggagagca
agctgcacccgtgttcagatcactcaagccggatggcgtgttctcgtcgattcctcgcgc
gatcactgcatctgttcgtcactcggaaatgccatcatcgtcgtccacgacaaattctgc
cgcacagacaccatctacttcagtcacacattcgactacggagaagcatcatcatcacca
gcaccaccagcatcaggagccaacatcagtgccgacaccatcgtcgcgaaacatgcaaag
ctgtggagtcgaaagcactcaacagccggaccgtaaacaggtggccgctgcgtggtcgac
aaaaatcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTGGCACCATTTATGTCGCCTGTT 622 435 2574 Antisense
GATTACGTTCCGTGTTCCACGTATC 341 413 2697 Antisense
GGATTCACTTGTCACATGGGAGCCC 261 509 2754 Antisense
ACCCGTGTTCAGATCACTCAAGCCG 606 89 2820 Antisense
CTCAAGCCGGATGGCGTGTTCTCGT 494 225 2836 Antisense
TGCATCTGTTCGTCACTCGGAAATG 140 577 2880 Antisense
TCGGAAATGCCATCATCGTCGTCCA 130 607 2896 Antisense
TCAGGAGCCAACATCAGTGCCGACA 410 623 3006 Antisense
TGCCGACACCATCGTCGCGAAACAT 1 585 3023 Antisense
GCCGGACCGTAAACAGGTGGCCGCT 81 255 3078 Antisense
GCCGCTGCGTGGTCGACAAAAATCG 467 285 3097 Antisense
Sequence Source Affymetrix Proprietary Database