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[179228_at]

Description R07H5.4 /REP_DB=WormBase Gene ID /WP=CE12556 /TR=Q93932 /GB=CAB03227.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 89      6grp_high1_10_10 > 99      6grp_highest_nonorm > 93      6grp_total > 99      4grp_total > 02      6grp_highest_sub > In      6grp_cgc > 79      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S5      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 750
1 2 3 4 range
A 134.9
(-2.5)
A 		129.5
(-2.6)
A 		83.2
(-3)
A 		740
(3)
P 		657
B 143.5
(-2.6)
M 		139.9
(-2.6)
A 		95.4
(-3)
M 		833.6
(3)
P 		738
C 170.9
(-2.3)
M 		99.5
(-3)
A 		143.3
(-2.6)
M 		756
(3)
P 		657
avr 149.8
(-2.6) 		123
(-2.9) 		107.3
(-3) 		776.5
(3) 		669

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 608
1 2 3 4 5 6 range
A 233.7
(-3)
P 		262.7
(-2.6)
P 		309.9
(-2)
P 		370.5
(-1.3)
P 		713
(3)
P 		694.4
(2.8)
P 		479
B 254.4
(-3)
P 		270.5
(-2.8)
P 		276.8
(-2.8)
P 		312.5
(-2.4)
P 		839.6
(3)
P 		723.8
(1.8)
P 		585
C 231.4
(-3)
P 		260.2
(-2.6)
P 		271
(-2.5)
P 		386.2
(-1.1)
P 		710.3
(3)
P 		703.1
(2.9)
P 		479
avr 239.8
(-3) 		264.5
(-2.7) 		285.9
(-2.5) 		356.4
(-1.6) 		754.3
(3) 		707.1
(2.4) 		515
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 156
1 2 3 4 range
A 49.1
(-1.1)
A 		28.1
(-2.6)
A 		21.7
(-3)
A 		108.3
(3)
P 		87
B 45.8
(-2.1)
M 		34.6
(-2.5)
A 		22.1
(-3)
M 		177.7
(3)
P 		156
C 56.6
(-1.3)
M 		28.6
(-3)
A 		49.9
(-1.7)
M 		127.5
(3)
P 		99
avr 50.5
(-1.9) 		30.4
(-3) 		31.2
(-3) 		137.8
(3) 		107

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 298
1 2 3 4 5 6 range
A 43.1
(-3)
P 		93.4
(-1.2)
P 		67.5
(-2.1)
P 		94
(-1.2)
P 		215.2
(3)
P 		169.1
(1.4)
P 		172
B 88.5
(-2.5)
P 		90
(-2.5)
P 		67.2
(-3)
P 		82.8
(-2.7)
P 		341.1
(3)
P 		269.9
(1.4)
P 		274
C 85.8
(-2.4)
P 		79.4
(-2.6)
P 		69
(-3)
P 		77.7
(-2.7)
P 		229.8
(2.8)
P 		235.4
(3)
P 		166
avr 72.5
(-2.9) 		87.6
(-2.4) 		67.9
(-3) 		84.8
(-2.5) 		262
(3) 		224.8
(1.9) 		194
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 179228_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9040
Sequence Type Exemplar sequence
Representative Public ID R07H5.4 NCBI
Target Description R07H5.4 /REP_DB=WormBase Gene ID /WP=CE12556 /TR=Q93932 /GB=CAB03227.1 /SUBMIT=HINXTON /CHR=4 /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_069698(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069698 NCBI Caenorhabditis elegans R07H5.4 (R07H5.4) mRNA, complete cds. 11/11 None
SNAP00000030260 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11187028:11188180:1 11/11 None
GENEFINDER00000030277 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11186162:11188180:1 11/11 None
R07H5.4 ENSEMBL cdna:known chromosome:CEL140:IV:11186984:11188222:1 gene:R07H5.4 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
chrIV:11187033-11188186(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol sdz-27
Ensembl R07H5.4
Entrez Gene 178027 Entrez gene
SwissProt Q93932 EMBL-EBI
WormBase CE12556 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB03227 Hypothetical protein R07H5.4 [Caenorhabditis elegans] ref|NP_502099.1| R07H5.4 [Caenorhabditis elegans] 1.0E-99
blast CAB03227 Hypothetical protein R07H5.4 [Caenorhabditis elegans] ref|NP_502099.1| R07H5.4 [Caenorhabditis elegans] 3.0E-99
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_502099.1 1 170-192
R07H5.4 1 170-192
SNAP00000030260 1 170-192
GENEFINDER00000030277 2 108-130,284-306
Sequence
Target Sequence 
>C. ELEGANS:179228_AT
atgaaactccatttgctcactgttctgctctcgcttgttctactttctgtcaatgccaag
ccatcaaaggagaaagacttccaattttctgatggaaacttgggtactccgatggaaaaa
tattttgaacaaatgggattcgagcaaaaagagagaaatgagcaaattataaataaacca
tcgagtgaagatgaatcatcaacagcaaccattccaaacactgaccatcatcaattaact
tggattccaaatgatgcataccttttcattggtaaaactcggtactacttcagagaaaac
tggattaagcttccaccaatcggaatgaaagttactgaagttgattcaattgttcaaatg
ccagaaatgaaccatcaagaagttgaagaattgagaagagaaaccgagaaaaaagaagga
tatgtggatcccaaagagtttgaaaagatccatgataccatcaaattttcgttcaccatg
gacacattcacttactatttccataagtactacacggaaatcctccttgttacagccgtg
attgtaatcatctgcattgctgtt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGAAACTCCATTTGCTCACTGTTC 104 45 13 Antisense
GCTTGTTCTACTTTCTGTCAATGCC 313 307 45 Antisense
TCATCAACAGCAACCATTCCAAACA 177 621 208 Antisense
ATTCCAAACACTGACCATCATCAAT 648 7 223 Antisense
ACTGGATTAAGCTTCCACCAATCGG 80 97 311 Antisense
GATACCATCAAATTTTCGTTCACCA 90 425 466 Antisense
TTCGTTCACCATGGACACATTCACT 24 697 480 Antisense
GACACATTCACTTACTATTTCCATA 368 367 493 Antisense
GTACTACACGGAAATCCTCCTTGTT 598 459 519 Antisense
CCTCCTTGTTACAGCCGTGATTGTA 369 267 534 Antisense
GATTGTAATCATCTGCATTGCTGTT 475 435 552 Antisense
Sequence Source Affymetrix Proprietary Database