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[174813_at]

Description CEK007FXR_rc /REP_DB=TREMBL Accession /GB=D28005 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk7f10 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 91      6grp_high1_10_10 > 39      4grp_highest_8_8 > 07      4grp_high_8_8 > 21      6grp_highest_nonorm > 37      6grp_total > 29      4grp_total > 18      6grp_cgc > 01      6grp_high1_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2674
1 2 3 4 range
A 4532.7
(-3)
P 		5358.6
(-1.1)
P 		4840.2
(-2.3)
P 		7129.9
(3)
P 		2597
B 4694.5
(-2.7)
P 		5173
(-1.6)
P 		4554
(-3)
P 		7206.9
(3)
P 		2653
C 4568.8
(-3)
P 		5702.6
(0.2)
P 		5003.5
(-1.8)
P 		6691.5
(3)
P 		2123
avr 4598.7
(-3) 		5411.4
(-1) 		4799.2
(-2.5) 		7009.4
(3) 		2411

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2418
1 2 3 4 5 6 range
A 6068.5
(3)
P 		4270.6
(-2.9)
P 		4226.9
(-3)
P 		4444.8
(-2.3)
P 		5876.2
(2.4)
P 		5184.1
(0.1)
P 		1842
B 6036.9
(3)
P 		4490.7
(-0.9)
P 		3650.7
(-3)
P 		5221.6
(0.9)
P 		4519.2
(-0.8)
P 		4833.4
(-0)
P 		2386
C 5952.3
(2.7)
P 		4328.9
(-3)
P 		5037.6
(-0.5)
P 		4873.4
(-1.1)
P 		6036.8
(3)
P 		4544.2
(-2.2)
P 		1708
avr 6019.2
(3) 		4363.4
(-2.8) 		4305.1
(-3) 		4846.6
(-1.1) 		5477.4
(1.1) 		4853.9
(-1.1) 		1714
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 700
1 2 3 4 range
A 1650.3
(3)
P 		1163.2
(-1.8)
P 		1265.3
(-0.8)
P 		1043.7
(-3)
P 		607
B 1497
(2.5)
P 		1277.6
(-0.2)
P 		1055.3
(-3)
P 		1535.8
(3)
P 		481
C 1512.4
(0.7)
P 		1639.5
(2)
P 		1743.9
(3)
P 		1128.3
(-3)
P 		616
avr 1553.2
(3) 		1360.1
(-0.7) 		1354.8
(-0.8) 		1235.9
(-3) 		317

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1320
1 2 3 4 5 6 range
A 1118.7
(-1.6)
P 		1518.8
(1.2)
P 		920.5
(-3)
P 		1127.3
(-1.5)
P 		1773.2
(3)
P 		1262.2
(-0.6)
P 		853
B 2100.5
(3)
P 		1494.8
(0)
P 		886.5
(-3)
P 		1383
(-0.5)
P 		1836.1
(1.7)
P 		1802.3
(1.5)
P 		1214
C 2206.2
(3)
P 		1320.9
(-1.3)
P 		1282.2
(-1.5)
P 		980
(-3)
P 		1953.4
(1.8)
P 		1521.2
(-0.4)
P 		1226
avr 1808.5
(2.7) 		1444.8
(0) 		1029.7
(-3) 		1163.4
(-2) 		1854.2
(3) 		1528.6
(0.6) 		825
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174813_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21870
Sequence Type Exemplar sequence
Representative Public ID CEK007FXR NCBI
Target Description CEK007FXR_rc /REP_DB=TREMBL Accession /GB=D28005 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk7f10 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_074257(11), NM_074255(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074257 NCBI Caenorhabditis elegans RETiculon protein family member (ret-1) (ret-1) mRNA, complete cds. 11/11 None
NM_074255 NCBI Caenorhabditis elegans RETiculon protein family member (ret-1) (ret-1) mRNA, complete cds. 9/11 None
W06A7.3b ENSEMBL cdna:known chromosome:CEL140:V:14831766:14833736:-1 gene:W06A7.3 11/11 None
W06A7.3c ENSEMBL cdna:known chromosome:CEL140:V:14831839:14846837:-1 gene:W06A7.3 9/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
179981 5 2 NM_074255 174813_at (9)
NM_074257 174813_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:14831795-14832138(-) 100.0 100.0
Public Domain and Genome References
Ensembl W06A7.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB51467 Hypothetical protein W06A7.3c [Caenorhabditis elegans] ref|NP_506656.1| RETiculon protein family member (ret-1) [Caenorhabditis elegans] 0.0
blast CAB01522 Hypothetical protein W06A7.3a [Caenorhabditis elegans] ref|NP_506657.1| RETiculon protein family member (ret-1) [Caenorhabditis elegans] 0.0
blast CAE48544 Hypothetical protein W06A7.3d [Caenorhabditis elegans] ref|NP_001024189.1| RETiculon protein family member (ret-1) [Caenorhabditis elegans] 0.0
blast CAB01523 Hypothetical protein W06A7.3b [Caenorhabditis elegans] ref|NP_506658.1| RETiculon protein family member (ret-1) [Caenorhabditis elegans] 1.0E-104
blast AAY54274 reticulon [Caenorhabditis remanei] 1.0E-95
Protein Domains
Database ID Description E-Value
Pfam IPR003388 EMBL-EBI Reticulon 7.6E-107
Pfam IPR003388 EMBL-EBI Reticulon 3.0E-107
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_506658.1 2 40-62,152-174
NP_506656.1 2 2319-2341,2407-2429
W06A7.3b 2 40-62,152-174
W06A7.3c 2 2319-2341,2407-2429
Sequence
Target Sequence 
>C. ELEGANS:174813_AT
catcccaaaaaattccgcattttgatatttatcatccccacccaaacccaaaatcgcttc
tatcaaattttcctcaattttttttttgacattttcaggcttttcccataatgcgtgtct
tcttgtagaatgtaagtcgatcaagtagattcaagcaacatctattgcttactatttccc
accaatacctacccacctaatgcatccaacccccaaccgattcataattatttgtactgt
atatcttgtcacaattttggtacatttattttctctcaattcccaattcagtccccaaac
aatgtcttttgtc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CATCCCAAAAAATTCCGCATTTTGA 35 211 13 Antisense
TTTGATATTTATCATCCCCACCCAA 310 665 33 Antisense
CCAAACCCAAAATCGCTTCTATCAA 90 275 54 Antisense
ATCGCTTCTATCAAATTTTCCTCAA 591 37 65 Antisense
TTGACATTTTCAGGCTTTTCCCATA 140 705 98 Antisense
TTCAGGCTTTTCCCATAATGCGTGT 377 685 106 Antisense
TTCCCATAATGCGTGTCTTCTTGTA 681 695 115 Antisense
AATGCGTGTCTTCTTGTAGAATGTA 383 167 122 Antisense
GTCGATCAAGTAGATTCAAGCAACA 704 473 148 Antisense
CCAATTCAGTCCCCAAACAATGTCT 467 277 295 Antisense
CAGTCCCCAAACAATGTCTTTTGTC 367 207 301 Antisense
Sequence Source Affymetrix Proprietary Database