[Home] | [Total List]

[173681_s_at]

Description AV189889 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F44B9.7 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV189889 /WB_GENE_ID=F44B9.7 /WP=CE24974 /CHR=3 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk563g5 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 94      6grp_high1_10_10 > 59      4grp_highest_8_8 > 45      4grp_high_8_8 > 08      6grp_highest_nonorm > 91      6grp_total > 39      4grp_total > 15      6grp_highest_sub > Cu      6grp_cgc > 18      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 148
1 2 3 4 range
A 274.5
(3)
P 		149.2
(-3)
P 		224.4
(0.6)
P 		260.7
(2.3)
P 		125
B 255.8
(3)
P 		171.4
(-0.9)
P 		126.9
(-3)
P 		235.9
(2.1)
P 		129
C 237.3
(3)
P 		164.9
(-3)
P 		232.5
(2.6)
P 		209.3
(0.7)
P 		72
avr 255.9
(3) 		161.8
(-3) 		194.6
(-0.9) 		235.3
(1.7) 		94

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 139
1 2 3 4 5 6 range
A 176.7
(-1.9)
P 		196.3
(0.9)
P 		210.3
(3)
P 		202.9
(1.9)
P 		169.4
(-3)
P 		196.8
(1)
P 		41
B 253.9
(3)
P 		223
(1.4)
P 		176.7
(-1.1)
P 		140.6
(-3)
P 		246.5
(2.6)
P 		251.4
(2.9)
P 		113
C 251.6
(2.2)
P 		270.5
(3)
P 		131.9
(-3)
P 		141.6
(-2.6)
P 		216.1
(0.6)
P 		247
(2)
P 		139
avr 227.4
(2.6) 		229.9
(2.8) 		173
(-2) 		161.7
(-3) 		210.7
(1.2) 		231.7
(3) 		70
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 71
1 2 3 4 range
A 99.9
(3)
P 		32.4
(-3)
P 		58.7
(-0.7)
P 		38.2
(-2.5)
P 		68
B 81.6
(3)
P 		42.3
(-1.5)
P 		29.4
(-3)
P 		50.3
(-0.6)
P 		52
C 78.6
(2.7)
P 		47.4
(-1.4)
P 		81
(3)
P 		35.3
(-3)
P 		46
avr 86.7
(3) 		40.7
(-3) 		56.4
(-1) 		41.3
(-2.9) 		46

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 72
1 2 3 4 5 6 range
A 32.6
(-3)
P 		69.8
(3)
P 		45.8
(-0.9)
P 		51.5
(0)
P 		51.1
(-0)
P 		47.9
(-0.5)
P 		37
B 88.3
(1.9)
P 		74.2
(0.5)
P 		42.9
(-2.5)
P 		37.2
(-3)
P 		100.2
(3)
P 		93.7
(2.4)
P 		63
C 93.2
(3)
P 		82.5
(2)
P 		33.6
(-2.5)
P 		28.5
(-3)
P 		69.9
(0.8)
P 		82.7
(2)
P 		65
avr 71.4
(2.3) 		75.5
(3) 		40.8
(-2.7) 		39.1
(-3) 		73.7
(2.7) 		74.8
(2.9) 		36
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173681_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24202
Sequence Type Exemplar sequence
Representative Public ID AV189889 NCBI
Target Description AV189889 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F44B9.7 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV189889 /WB_GENE_ID=F44B9.7 /WP=CE24974 /CHR=3 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk563g5 : 5prime 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_066348(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066348 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-38) (pqn-38) mRNA, complete cds. 11/11 None
SNAP00000005269 ENSEMBL cdna:SNAP chromosome:CEL140:III:8025187:8027961:-1 11/11 None
GENEFINDER00000005273 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:8025187:8028092:-1 11/11 None
F44B9.7 ENSEMBL cdna:known chromosome:CEL140:III:8025134:8027966:-1 gene:F44B9.7 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:8025185-8029572(-) 97.66 100.0
Public Domain and Genome References
Gene Title
Gene Symbol pqn-38
Ensembl F44B9.7
Entrez Gene 176130 Entrez gene
SwissProt P34428 EMBL-EBI
WormBase CE29043 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK95877 Prion-like-(q/n-rich)-domain-bearing protein protein 38 [Caenorhabditis elegans] ref|NP_498749.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-38) [Caenorhabditis elegans] sp|P34428|YL37_CAEEL Hypothetical protein F44B9.7 in chromosome III 1.0E-143
blast S44810 F44B9.7 protein - Caenorhabditis elegans 1.0E-139
blast CAE75045 Hypothetical protein CBG22958 [Caenorhabditis briggsae] 1.0E-71
Sequence
Target Sequence 
>C. ELEGANS:173681_S_AT
ggctcagcaaacagaaccacaatcacacatccgtgagtcgccgcaaaaagaaactaattt
agaaaagtattcaacgggagaattgtgtttatatggaagagagttggttaatgatctcaa
tgtcagaacatcatatttatcaacgatactcaaaaaagtaatggaacggaagccattgaa
tcaaggagaaaatccgaatgatttggctgatcagtgtaaaaacgctttgcagagaatgag
tgacattcgacaaataattgaaaaacgccgtgaacccacatggaaacgaatgactggtga
agactacattgaattgatgcttgatgactcagaattgaaaaaaccgatggatgaagaacg
acagaaaagaagagcagagctggagcaaggattcgcgattgtaatctctaaaacaccacc
agtagaaggacatatatggtatcagggaaaatggatttccgaagagcttcacaagaaata
tatgcagtttgaggcaaatagagaaatcgttaaaaacttggcggctgaactgaaagcgtt
ggcatggaaaatcgatgttaccagtccggga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGCTCAGCAAACAGAACCACAATCA 404 539 1903 Antisense
GAACCACAATCACACATCCGTGAGT 472 345 1916 Antisense
ACATCCGTGAGTCGCCGCAAAAAGA 297 107 1929 Antisense
GGAACGGAAGCCATTGAATCAAGGA 527 527 2065 Antisense
GGCTGATCAGTGTAAAAACGCTTTG 615 539 2107 Antisense
AACGCCGTGAACCCACATGGAAACG 570 145 2166 Antisense
GTAATCTCTAAAACACCACCAGTAG 347 463 2303 Antisense
AAATGGATTTCCGAAGAGCTTCACA 325 121 2351 Antisense
GAAATCGTTAAAAACTTGGCGGCTG 299 353 2405 Antisense
GGCGGCTGAACTGAAAGCGTTGGCA 390 541 2422 Antisense
GAAAATCGATGTTACCAGTCCGGGA 434 353 2449 Antisense
Sequence Source Affymetrix Proprietary Database