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[193595_at] Arabidopsis pathogenesis-related protein 5 like

Description F28D1.3 /REP_DB=WormBase Gene ID /WP=CE05743 /TR=Q19874 /GB=CAA94598.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Arabidopsis pathogenesis-related protein 5 like
Cluster 6grp_total > 98      4grp_total > 27      6grp_cgc > 69      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 73
1 2 3 4 range
A 18.2
(-1.7)
A 		15.4
(-2)
A 		2.8
(-3)
A 		75.9
(3)
A 		73
B 4.1
(-2.8)
A 		35.5
(3)
A 		3.1
(-3)
A 		32
(2.4)
A 		32
C 23.5
(-1.2)
A 		48.9
(2.2)
A 		10.3
(-3)
A 		54.5
(3)
A 		44
avr 15.3
(-1.8) 		33.3
(0.4) 		5.4
(-3) 		54.1
(3) 		49

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 198
1 2 3 4 5 6 range
A 7
(-2.9)
A 		5.5
(-3)
A 		48.9
(-0.8)
A 		5.6
(-3)
A 		104.6
(1.9)
P 		126
(3)
P 		121
B 2
(-3)
A 		32.1
(-1.8)
A 		22.9
(-2.2)
A 		43.5
(-1.3)
A 		106.7
(1.2)
P 		150.3
(3)
P 		148
C 23.3
(-2.7)
A 		15.6
(-3)
A 		15.6
(-3)
A 		16.2
(-3)
A 		123.3
(0.5)
P 		200
(3)
P 		184
avr 10.8
(-3) 		17.7
(-2.7) 		29.1
(-2.3) 		21.8
(-2.6) 		111.5
(1.1) 		158.8
(3) 		148
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 13
1 2 3 4 range
A 6.6
(0.4)
A 		3.3
(-1.5)
A 		0.7
(-3)
A 		11.1
(3)
A 		10
B 1.3
(-2.6)
A 		8.8
(3)
A 		0.7
(-3)
A 		6.8
(1.5)
A 		8
C 7.8
(-0.6)
A 		14.1
(3)
A 		3.6
(-3)
A 		9.2
(0.2)
A 		11
avr 5.2
(-0.1) 		8.7
(2.8) 		1.7
(-3) 		9
(3) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 66
1 2 3 4 5 6 range
A 1.3
(-3)
A 		2
(-2.9)
A 		10.7
(-1.1)
A 		1.4
(-3)
A 		31.6
(3)
P 		30.7
(2.8)
P 		30
B 0.7
(-3)
A 		10.7
(-1.9)
A 		5.6
(-2.5)
A 		11.5
(-1.8)
A 		43.3
(1.6)
P 		56
(3)
P 		55
C 8.6
(-2.5)
A 		4.8
(-2.8)
A 		4
(-2.9)
A 		3.2
(-3)
A 		39.9
(0.5)
P 		67
(3)
P 		64
avr 3.5
(-3) 		5.8
(-2.7) 		6.8
(-2.6) 		5.4
(-2.8) 		38.3
(1.4) 		51.2
(3) 		48
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193595_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9668
Sequence Type Exemplar sequence
Representative Public ID F28D1.3 NCBI
Target Description F28D1.3 /REP_DB=WormBase Gene ID /WP=CE05743 /TR=Q19874 /GB=CAA94598.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Arabidopsis pathogenesis-related protein 5 like
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_069959(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069959 NCBI Caenorhabditis elegans THaumatiN family member (thn-1) (thn-1) mRNA, complete cds. 11/11 A 
SNAP00000029693 ENSEMBL cdna:SNAP chromosome:CEL140:IV:12380073:12380826:1 11/11 None
GENEFINDER00000029709 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:12380073:12382308:1 11/11 None
F28D1.3 ENSEMBL cdna:known chromosome:CEL140:IV:12380073:12380826:1 gene:F28D1.3 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:12380078-12380832(+) 100.0 100.0
chrIV:12383156-12383895(+) 92.45 92.45
Public Domain and Genome References
Gene Title Arabidopsis pathogenesis-related protein 5 like
Gene Symbol thn-1
Ensembl F28D1.3
Entrez Gene 185060 Entrez gene
SwissProt Q19874 EMBL-EBI
WormBase CE05743 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:261248_AT pathogenesis-related thaumatin family protein at
Protein Similarities
Method ID Description E-Value
blast CAA94599 Hypothetical protein F28D1.4 [Caenorhabditis elegans] ref|NP_502361.1| THaumatiN family member (thn-3) [Caenorhabditis elegans] 1.0E-140
blast CAA94598 Hypothetical protein F28D1.3 [Caenorhabditis elegans] ref|NP_502360.1| THaumatiN family member (thn-1) [Caenorhabditis elegans] 1.0E-121
blast CAA94598 Hypothetical protein F28D1.3 [Caenorhabditis elegans] ref|NP_502360.1| THaumatiN family member (thn-1) [Caenorhabditis elegans] 1.0E-120
blast CAE59849 Hypothetical protein CBG03322 [Caenorhabditis briggsae] 1.0E-117
blast CAA94600 Hypothetical protein F28D1.5 [Caenorhabditis elegans] ref|NP_502362.1| THaumatiN family member (thn-2) [Caenorhabditis elegans] 1.0E-116
Protein Domains
Database ID Description E-Value
Pfam IPR001938 EMBL-EBI Thaumatin, pathogenesis-related 1.3E-107
Pfam IPR001938 EMBL-EBI Thaumatin, pathogenesis-related 4.9E-106
Pfam IPR001938 EMBL-EBI Thaumatin, pathogenesis-related 2.3E-103
Sequence
Target Sequence 
>C. ELEGANS:193595_AT
gccccggaaatccatctggaggtggtttcaagctcaatgctggacaatctagagatatca
atgtcgatgatgcatggactgccggaagagtttgggcaagaactggatgtgatggaaact
tcaactgtgagaccggattctgcagaaactcggagcaatgtaacggagctggaggagttc
caccagcatcccttgctgaattcacattgaaggcttggggaggacaagatttctatgatg
tatcccttgtcgacggatacaatcttccagttctgattgacccacatggtggatctggat
gcaagcgtgcaggtggatgtgtcaaggatatcaatgctgagtgcccagctgctctttccg
ttaagggacacaacgggaagactgtcgcctgcaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCCCGGAAATCCATCTGGAGGTGG 636 283 125 Antisense
ATCTGGAGGTGGTTTCAAGCTCAAT 611 31 138 Antisense
GGTGGTTTCAAGCTCAATGCTGGAC 580 499 145 Antisense
AGCTCAATGCTGGACAATCTAGAGA 519 79 155 Antisense
AATCTAGAGATATCAATGTCGATGA 330 167 170 Antisense
TCCCTTGTCGACGGATACAATCTTC 595 595 367 Antisense
ATACAATCTTCCAGTTCTGATTGAC 254 25 381 Antisense
CAGCTGCTCTTTCCGTTAAGGGACA 619 201 470 Antisense
TGCTCTTTCCGTTAAGGGACACAAC 69 579 474 Antisense
GACACAACGGGAAGACTGTCGCCTG 635 363 491 Antisense
CAACGGGAAGACTGTCGCCTGCAAA 580 187 495 Antisense
Sequence Source Affymetrix Proprietary Database