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[177730_s_at]

Description C53A5.1 /REP_DB=WormBase Gene ID /WP=CE08950 /TR=O17694 /GB=CAB03983.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 05      6grp_high1_10_10 > 50      4grp_highest_8_8 > 16      4grp_high_8_8 > 52      6grp_highest_nonorm > 18      6grp_total > 41      4grp_total > 59      6grp_highest_sub > 03_04      6grp_cgc > 60      6grp_high1_sub > 03_04      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 13204
1 2 3 4 range
A 18601.2
(1)
P 		19916.3
(1.8)
P 		22035.2
(3)
P 		11630.6
(-3)
P 		10405
B 14394.3
(0.5)
P 		18368.5
(3)
P 		18421
(3)
P 		8831.5
(-3)
P 		9590
C 17772.3
(1.7)
P 		20147.9
(3)
P 		19083.2
(2.4)
P 		8917.7
(-3)
P 		11230
avr 16922.6
(1.3) 		19477.6
(2.8) 		19846.5
(3) 		9793.3
(-3) 		10053

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 8619
1 2 3 4 5 6 range
A 15704.8
(-1.1)
P 		16109.1
(-0.7)
P 		19785
(3)
P 		19566.3
(2.8)
P 		13774
(-3)
P 		14513.8
(-2.3)
P 		6011
B 16690.9
(2.9)
P 		16289
(2.4)
P 		16498.2
(2.6)
P 		16771
(3)
P 		15168.1
(0.9)
P 		12223.8
(-3)
P 		4547
C 16689.8
(1.5)
P 		18575.8
(3)
P 		18262.1
(2.7)
P 		15769.7
(0.7)
P 		16627
(1.4)
P 		11166.3
(-3)
P 		7410
avr 16361.8
(1) 		16991.3
(1.7) 		18181.8
(3) 		17369
(2.1) 		15189.7
(-0.2) 		12634.6
(-3) 		5547
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5269
1 2 3 4 range
A 6772.7
(3)
P 		4323.3
(0.1)
P 		5760.4
(1.8)
P 		1702.5
(-3)
P 		5070
B 4590.2
(3)
P 		4536.6
(2.9)
P 		4268.6
(2.3)
P 		1882
(-3)
P 		2708
C 5883.1
(2.1)
P 		5792.6
(2)
P 		6651.1
(3)
P 		1503.7
(-3)
P 		5147
avr 5748.7
(3) 		4884.2
(1.7) 		5560
(2.7) 		1696.1
(-3) 		4053

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3291
1 2 3 4 5 6 range
A 2895
(-3)
P 		5729.2
(3)
P 		4308.8
(-0)
P 		4962.5
(1.4)
P 		4156.4
(-0.3)
P 		3533.7
(-1.6)
P 		2834
B 5807.6
(2)
P 		5421.9
(0.9)
P 		4006.3
(-3)
P 		4442.1
(-1.8)
P 		6162.6
(3)
P 		4558.2
(-1.5)
P 		2156
C 6186.2
(3)
P 		5668
(2)
P 		4648
(-0.1)
P 		3171.3
(-3)
P 		5380.3
(1.4)
P 		3738
(-1.9)
P 		3015
avr 4962.9
(0.7) 		5606.4
(3) 		4321
(-1.6) 		4192
(-2.1) 		5233.1
(1.7) 		3943.3
(-3) 		1663
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 177730_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12950
Sequence Type Exemplar sequence
Representative Public ID C53A5.1 NCBI
Target Description C53A5.1 /REP_DB=WormBase Gene ID /WP=CE08950 /TR=O17694 /GB=CAB03983.1 /SUBMIT=HINXTON /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_074197(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074197 NCBI Caenorhabditis elegans C53A5.1 (C53A5.1) mRNA, complete cds. 11/11 None
SNAP00000009283 ENSEMBL cdna:SNAP chromosome:CEL140:V:14526074:14526700:-1 11/11 None
GENEFINDER00000009303 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:14526074:14526700:-1 11/11 None
C53A5.1.3 ENSEMBL cdna:known chromosome:CEL140:V:14525918:14526718:-1 gene:C53A5.1 11/11 None
C53A5.1.2 ENSEMBL cdna:known chromosome:CEL140:V:14525918:14526717:-1 gene:C53A5.1 11/11 None
C53A5.1.1 ENSEMBL cdna:known chromosome:CEL140:V:14525918:14526719:-1 gene:C53A5.1 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
chrV:14526073-14526700(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol ril-1
Ensembl C53A5.1
Entrez Gene 179958 Entrez gene
SwissProt O17694 EMBL-EBI
WormBase CE08950 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB03983 Hypothetical protein C53A5.1 [Caenorhabditis elegans] ref|NP_506598.1| C53A5.1 [Caenorhabditis elegans] 4.0E-74
blast CAE60877 Hypothetical protein CBG04589 [Caenorhabditis briggsae] 1.0E-72
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_506598.1 1 62-84
C53A5.1.3 1 62-84
C53A5.1.2 1 62-84
C53A5.1.1 1 62-84
SNAP00000009283 1 62-84
GENEFINDER00000009303 1 62-84
Sequence
Target Sequence 
>C. ELEGANS:177730_S_AT
gccgagacagtcaaaggagccgccgtcgtcgttgcttctccaaatgctccaatcccggcc
acagaccttcatccacgcatgccagcccggccatggaccgctcaagaatacttgagaatg
tggtcctggcgccattgctggaagtacctcccaatcttccgtttctacatttactcagga
gtcattctctacggagtctacaaattcgccctgccaatcaagccacgccacatggttcaa
tactccaaaggaaaggaagaccatcaccatcacgaagtcgagcactggtggggaattcgc
caaaagttggccgataaggaatatttcaagaagtacaacccactcaagaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCGAGACAGTCAAAGGAGCCGCCG 320 283 52 Antisense
TCCTGGCGCCATTGCTGGAAGTACC 84 555 175 Antisense
TGCTGGAAGTACCTCCCAATCTTCC 59 577 187 Antisense
ATCTTCCGTTTCTACATTTACTCAG 537 29 205 Antisense
CTCAGGAGTCATTCTCTACGGAGTC 546 227 225 Antisense
CTACGGAGTCTACAAATTCGCCCTG 235 225 240 Antisense
TCAAGCCACGCCACATGGTTCAATA 250 631 269 Antisense
GGAAAGGAAGACCATCACCATCACG 295 527 301 Antisense
TCACCATCACGAAGTCGAGCACTGG 86 627 315 Antisense
GAGCACTGGTGGGGAATTCGCCAAA 61 391 331 Antisense
TCAAGAAGTACAACCCACTCAAGAA 515 629 377 Antisense
Sequence Source Affymetrix Proprietary Database