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[188214_at]

Description T01B10.1 /REP_DB=WormBase Gene ID /WP=CE07455 /GEN=grd-4 /TR=O02154 /GB=AAB52858.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_total > 93      4grp_total > 02      6grp_cgc > 88      6grp_total_sub > Hat      6grp_rule_based > S5      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 137
1 2 3 4 range
A 27.3
(-1.7)
A 		10.3
(-2.7)
A 		4.6
(-3)
A 		108.9
(3)
P 		104
B 12.1
(-2.5)
A 		3.3
(-3)
A 		11
(-2.6)
A 		119.6
(3)
P 		116
C 3.9
(-3)
A 		27.8
(-1.9)
A 		4.2
(-3)
A 		139.8
(3)
P 		136
avr 14.4
(-2.6) 		13.8
(-2.6) 		6.6
(-3) 		122.8
(3) 		116

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5320
1 2 3 4 5 6 range
A 7.7
(-3)
A 		14.9
(-3)
A 		15
(-3)
A 		1687.9
(-0.5)
P 		4011.5
(3)
P 		606
(-2.1)
P 		4004
B 13.7
(-3)
A 		19
(-3)
A 		15
(-3)
A 		1185.4
(-1.7)
P 		5324.6
(3)
P 		769.9
(-2.1)
P 		5311
C 4.5
(-3)
A 		8.3
(-3)
A 		5.2
(-3)
A 		1400.8
(-0.7)
P 		3706.4
(3)
P 		879.1
(-1.6)
P 		3702
avr 8.6
(-3) 		14.1
(-3) 		11.7
(-3) 		1424.7
(-1) 		4347.5
(3) 		751.7
(-2) 		4339
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 25
1 2 3 4 range
A 9.9
(0.6)
A 		2.2
(-2.6)
A 		1.2
(-3)
A 		15.9
(3)
P 		15
B 3.9
(-2.2)
A 		0.8
(-3)
A 		2.6
(-2.6)
A 		25.5
(3)
P 		25
C 1.3
(-3)
A 		8
(-1.2)
A 		1.5
(-2.9)
A 		23.6
(3)
P 		22
avr 5
(-2) 		3.7
(-2.4) 		1.8
(-3) 		21.7
(3) 		20

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2162
1 2 3 4 5 6 range
A 1.4
(-3)
A 		5.3
(-3)
A 		3.3
(-3)
A 		428.1
(-0.9)
P 		1210.5
(3)
P 		147.5
(-2.3)
P 		1209
B 4.8
(-3)
A 		6.3
(-3)
A 		3.7
(-3)
A 		314
(-2.1)
P 		2163.3
(3)
P 		287.1
(-2.2)
P 		2160
C 1.7
(-3)
A 		2.5
(-3)
A 		1.3
(-3)
A 		281.7
(-1.6)
P 		1199.3
(3)
P 		294.3
(-1.5)
P 		1198
avr 2.6
(-3) 		4.7
(-3) 		2.8
(-3) 		341.3
(-1.7) 		1524.4
(3) 		243
(-2.1) 		1522
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188214_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17143
Sequence Type Exemplar sequence
Representative Public ID T01B10.1 NCBI
Target Description T01B10.1 /REP_DB=WormBase Gene ID /WP=CE07455 /GEN=grd-4 /TR=O02154 /GB=AAB52858.1 /SUBMIT=ST.LOUIS /CHR=X /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_077041(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077041 NCBI Caenorhabditis elegans GRounDhog (hedgehog-like family) family member (grd-4) (grd-4) mRNA, complete cds. 11/11 None
SNAP00000040473 ENSEMBL cdna:SNAP chromosome:CEL140:X:8501276:8502086:1 11/11 None
GENEFINDER00000040477 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:8501276:8502086:1 11/11 None
T01B10.1 ENSEMBL cdna:known chromosome:CEL140:X:8501276:8502086:1 gene:T01B10.1 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
chrX:8501274-8502085(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol grd-4
Ensembl T01B10.1
Entrez Gene 191660 Entrez gene
SwissProt O02154 EMBL-EBI
WormBase CE07455 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB52858 Groundhog (hedgehog-like family) protein 4 [Caenorhabditis elegans] ref|NP_509442.1| GRounDhog (hedgehog-like family) family member (grd-4) [Caenorhabditis elegans] 6.0E-95
blast CAE74910 Hypothetical protein CBG22788 [Caenorhabditis briggsae] 3.0E-64
blast AAP40517 Groundhog (hedgehog-like family) protein 3 [Caenorhabditis elegans] ref|NP_500346.2| GRounDhog (hedgehog-like family) family member (grd-3) [Caenorhabditis elegans] 5.0E-56
Protein Domains
Database ID Description E-Value
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 1.5E-22
Sequence
Target Sequence 
>C. ELEGANS:188214_AT
ttctccttctcattggattcgcagctgtagctgttcaaggccaagacgacaactgtcctt
ctatgaaatctcgtaaacatgcgaaatctggagatctttattgctgcgatagcacaatca
aaactgttatcaaaagaggaataagaacgttgagctattttggtgatgacgggccacaaa
ctcttggaccaattgttcaaggtctgagcacttatgttcagagacattatggagtggcgt
acgaaattgtcctggctccgaaaggatttattttgaacagcaattacaatggaagcagtg
tctgcaaatttgaaactaacagctacactatggctgtttacgagaccccagaacactacg
atgttaacggtccaggagaggcctactattaccactttgctgcaaacgacaaacttcgta
ttccatccgttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCTCCTTCTCATTGGATTCGCAGC 564 693 23 Antisense
GCTGTAGCTGTTCAAGGCCAAGACG 218 293 46 Antisense
GGCCAAGACGACAACTGTCCTTCTA 521 543 61 Antisense
GATGACGGGCCACAAACTCTTGGAC 14 411 187 Antisense
GTTCAAGGTCTGAGCACTTATGTTC 253 445 217 Antisense
GAGTGGCGTACGAAATTGTCCTGGC 111 401 254 Antisense
ACTATGGCTGTTTACGAGACCCCAG 481 101 349 Antisense
GAGACCCCAGAACACTACGATGTTA 591 391 364 Antisense
AACGGTCCAGGAGAGGCCTACTATT 149 67 388 Antisense
GCCTACTATTACCACTTTGCTGCAA 240 283 403 Antisense
GACAAACTTCGTATTCCATCCGTTT 128 365 430 Antisense
Sequence Source Affymetrix Proprietary Database