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[180979_at]

Description F41E6.2 /REP_DB=WormBase Gene ID /WP=CE10246 /TR=O16462 /GB=AAB65952.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 19      6grp_high1_10_10 > 92      4grp_high_8_8 > 54      6grp_highest_nonorm > 59      6grp_total > 83      4grp_total > 49      6grp_highest_sub > 05      6grp_cgc > 87      6grp_high1_sub > 04_05      6grp_cgc_sub > 05      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5137
1 2 3 4 range
A 155.6
(-3)
P 		4021.6
(1.6)
P 		5251.6
(3)
P 		145.4
(-3)
M 		5106
B 131.5
(-3)
P 		5076.3
(2.9)
P 		5137.3
(3)
P 		148.3
(-3)
P 		5006
C 209.5
(-2.9)
P 		5060.2
(2.9)
P 		5182.4
(3)
P 		114.4
(-3)
P 		5068
avr 165.5
(-3) 		4719.4
(2.4) 		5190.4
(3) 		136
(-3) 		5054

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5203
1 2 3 4 5 6 range
A 128.6
(-3)
P 		3008.4
(0.5)
P 		2864.5
(0.4)
P 		4694.9
(2.6)
P 		5025.9
(3)
P 		2663.5
(0.1)
P 		4897
B 158.3
(-3)
P 		2719.5
(-0)
P 		2559.6
(-0.2)
P 		3765.9
(1.2)
P 		5331.5
(3)
P 		2757.2
(0)
P 		5173
C 189
(-3)
P 		2564.3
(-0.1)
P 		2300
(-0.4)
P 		3677.1
(1.2)
P 		5124.2
(3)
P 		2504.2
(-0.2)
P 		4935
avr 158.6
(-3) 		2764.1
(0.1) 		2574.7
(-0.1) 		4046
(1.7) 		5160.5
(3) 		2641.6
(-0) 		5002
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1787
1 2 3 4 range
A 56.7
(-2.8)
P 		873
(0.8)
P 		1372.9
(3)
P 		21.3
(-3)
M 		1352
B 41.9
(-2.9)
P 		1253.7
(3)
P 		1190.4
(2.7)
P 		31.6
(-3)
P 		1222
C 69.3
(-2.8)
P 		1454.8
(1.8)
P 		1806.2
(3)
P 		19.3
(-3)
P 		1787
avr 56
(-2.9) 		1193.8
(1.9) 		1456.5
(3) 		24.1
(-3) 		1432

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2142
1 2 3 4 5 6 range
A 23.7
(-3)
P 		1069.9
(1.2)
P 		623.8
(-0.6)
P 		1190.7
(1.7)
P 		1516.6
(3)
P 		648.5
(-0.5)
P 		1493
B 55.1
(-3)
P 		905.2
(-0.6)
P 		621.5
(-1.4)
P 		997.5
(-0.3)
P 		2166.1
(3)
P 		1028.2
(-0.2)
P 		2111
C 70.1
(-3)
P 		782.5
(-0.3)
P 		585.4
(-1.1)
P 		739.5
(-0.5)
P 		1658.1
(3)
P 		838.3
(-0.1)
P 		1588
avr 49.6
(-3) 		919.2
(0) 		610.2
(-1.1) 		975.9
(0.2) 		1780.3
(3) 		838.3
(-0.3) 		1731
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180979_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11901
Sequence Type Exemplar sequence
Representative Public ID F41E6.2 NCBI
Target Description F41E6.2 /REP_DB=WormBase Gene ID /WP=CE10246 /TR=O16462 /GB=AAB65952.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=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_072822(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072822 NCBI Caenorhabditis elegans GRounDhog (hedgehog-like family) family member (grd-5) (grd-5) mRNA, complete cds. 11/11 None
SNAP00000009427 ENSEMBL cdna:SNAP chromosome:CEL140:V:8621638:8622261:1 11/11 None
GENEFINDER00000009439 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8621638:8622261:1 11/11 None
F41E6.2 ENSEMBL cdna:known chromosome:CEL140:V:8621625:8622427:1 gene:F41E6.2 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
chrV:8621638-8622262(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol grd-5
Ensembl F41E6.2
Entrez Gene 179244 Entrez gene
SwissProt O16462 EMBL-EBI
WormBase CE10246 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7154 cell communication inferred from sequence similarity QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5576 extracellular region inferred from sequence similarity QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5102 receptor binding inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB65952 Groundhog (hedgehog-like family) protein 5 [Caenorhabditis elegans] ref|NP_505223.1| GRounDhog (hedgehog-like family) family member (grd-5) [Caenorhabditis elegans] 5.0E-54
blast CAE58352 Hypothetical protein CBG01473 [Caenorhabditis briggsae] 4.0E-51
blast AAB92033 Groundhog (hedgehog-like family) protein 10 [Caenorhabditis elegans] ref|NP_500347.1| GRounDhog (hedgehog-like family) family member (grd-10) [Caenorhabditis elegans] 8.0E-47
Protein Domains
Database ID Description E-Value
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 7.9E-28
Sequence
Target Sequence 
>C. ELEGANS:180979_AT
gttactgtctgctttgcacaggacaattgctacatcaatgacagcggtttcacttgctgt
aacaaggagctcgagtcagccatgaaaggagccatgggaggagatgacttgctcggatca
gccgattccattcaaaagggagccgaaggatctctcggaggaaaattcgagactgtcgtc
gctctcgatgactttgcctacaaatctcatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTACTGTCTGCTTTGCACAGGACA 543 445 46 Antisense
GCTACATCAATGACAGCGGTTTCAC 237 303 74 Antisense
AGCGGTTTCACTTGCTGTAACAAGG 56 83 88 Antisense
CAAGGAGCTCGAGTCAGCCATGAAA 681 183 108 Antisense
GGAGGAGATGACTTGCTCGGATCAG 324 515 142 Antisense
TGCTCGGATCAGCCGATTCCATTCA 557 579 155 Antisense
GCCGATTCCATTCAAAAGGGAGCCG 214 283 166 Antisense
GGGAGCCGAAGGATCTCTCGGAGGA 131 495 183 Antisense
AAAATTCGAGACTGTCGTCGCTCTC 696 131 207 Antisense
TCGAGACTGTCGTCGCTCTCGATGA 345 603 212 Antisense
GATGACTTTGCCTACAAATCTCATT 60 413 232 Antisense
Sequence Source Affymetrix Proprietary Database