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[171840_x_at]

Description CEC2913_rc /REP_DB=TREMBL Accession /GB=C10291 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk135h5 : 3prime end, single read.
Cluster 6grp_total > 12      4grp_total > 51      6grp_cgc > 43      6grp_cgc_sub > 02      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 160
1 2 3 4 range
A 76.6
(-3)
A 		141.9
(3)
A 		128
(1.7)
A 		87
(-2)
A 		65
B 135.8
(0.2)
A 		78.9
(-2.9)
P 		186.7
(3)
A 		77.6
(-3)
P 		109
C 118.8
(1.6)
P 		146.7
(3)
P 		26.4
(-3)
A 		103.1
(0.8)
A 		120
avr 110.4
(0.8) 		122.5
(3) 		113.7
(1.4) 		89.2
(-3) 		33

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 175
1 2 3 4 5 6 range
A 151
(1)
A 		195.8
(3)
P 		115.9
(-0.6)
A 		62.6
(-3)
P 		130.6
(0.1)
A 		64.1
(-2.9)
A 		133
B 45.5
(-3)
M 		143.1
(2.1)
A 		160.7
(3)
P 		85.5
(-0.9)
A 		73
(-1.6)
M 		59.2
(-2.3)
A 		115
C 138.9
(3)
A 		107.6
(1.4)
A 		20.5
(-3)
A 		92.7
(0.7)
A 		41.6
(-1.9)
A 		79
(-0)
A 		118
avr 111.8
(0.3) 		148.8
(3) 		99
(-0.7) 		80.3
(-2) 		81.7
(-1.9) 		67.4
(-3) 		81
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 34
1 2 3 4 range
A 27.9
(1.4)
A 		30.8
(2.2)
A 		33.5
(3)
A 		12.7
(-3)
A 		21
B 43.3
(3)
A 		19.5
(-2.3)
P 		43.3
(3)
A 		16.5
(-3)
P 		27
C 39.3
(2.5)
P 		42.2
(3)
P 		9.2
(-3)
A 		17.4
(-1.5)
A 		33
avr 36.8
(3) 		30.8
(1.3) 		28.7
(0.7) 		15.5
(-3) 		21

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 64
1 2 3 4 5 6 range
A 27.8
(-1.6)
A 		69.6
(3)
P 		25.2
(-1.9)
A 		15.9
(-3)
P 		39.4
(-0.4)
A 		15.6
(-3)
A 		54
B 15.8
(-3)
M 		47.6
(3)
A 		39
(1.4)
P 		22.6
(-1.7)
A 		29.7
(-0.4)
M 		22.1
(-1.8)
A 		32
C 51.5
(3)
A 		32.8
(0.6)
A 		5.2
(-3)
A 		18.6
(-1.3)
A 		13.5
(-1.9)
A 		26.4
(-0.3)
A 		46
avr 31.7
(-0.5) 		50
(3) 		23.1
(-2.2) 		19
(-3) 		27.5
(-1.4) 		21.4
(-2.5) 		31
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171840_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28043
Sequence Type Exemplar sequence
Representative Public ID CEC2913 NCBI
Target Description CEC2913_rc /REP_DB=TREMBL Accession /GB=C10291 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk135h5 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_171613
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171613 NCBI Caenorhabditis elegans Intermediate Filament, C family member (ifc-2) (ifc-2) mRNA, complete cds. A 
SNAP00000028056 ENSEMBL cdna:SNAP chromosome:CEL140:X:642213:645671:-1 None
M6.1b ENSEMBL cdna:known chromosome:CEL140:X:642175:650091:-1 gene:M6.1 A 
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:642228-642804(-) 90.58 90.58
Public Domain and Genome References
Ensembl M6.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAM69101 Intermediate filament, c protein 2, isoform b [Caenorhabditis elegans] ref|NP_741705.1| Intermediate Filament, C family member (ifc-2) [Caenorhabditis elegans] 0.0
blast AAM69100 Intermediate filament, c protein 2, isoform a [Caenorhabditis elegans] ref|NP_741706.1| Intermediate Filament, C family member (ifc-2) [Caenorhabditis elegans] 0.0
blast T29185 hypothetical protein M6.1 - Caenorhabditis elegans 0.0
blast Q21067 Intermediate filament protein ifc-2 (Intermediate filament protein C2) (IF-C2) (Cel IF C2) 0.0
blast CAA50184 Cytoplasmic intermediate filament (IF) protein [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001664 EMBL-EBI Intermediate filament protein 1.0E-12
Pfam IPR001664 EMBL-EBI Intermediate filament protein 8.1E-12
Pfam IPR001664 EMBL-EBI Intermediate filament protein 1.0E-12
Pfam IPR001664 EMBL-EBI Intermediate filament protein 8.1E-12
Sequence
Target Sequence 
>C. ELEGANS:171840_X_AT
tgggggccattttctattaatcaagtaactccaagttacatagaattgtagaacatttcc
tccatcagacgtgtcgatgttggaggttttagaattgagcaatcagttaacggccaagtt
ncttggaagtgctcaaattaatgttcctcttattcttgatccactagaagttgtgaggtt
taaccacagacttcggaccataccttggtcagttnctttatggatgttgatgcatttgat
aattactactgttggctagaac

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGGGGGCCATTTTCTATTAATCAAG 431 551 14 Antisense
ATTGTAGAACATTTCCTCCATCAGA 323 5 58 Antisense
ATTTCCTCCATCAGACGTGTCGATG 120 17 68 Antisense
GACGTGTCGATGTTGGAGGTTTTAG 360 369 81 Antisense
TGAGCAATCAGTTAACGGCCAAGTT 325 565 109 Antisense
AGTGCTCAAATTAATGTTCCTCTTA 235 61 141 Antisense
TTCCTCTTATTCTTGATCCACTAGA 72 701 157 Antisense
GTTTAACCACAGACTTCGGACCATA 650 449 191 Antisense
CACAGACTTCGGACCATACCTTGGT 549 193 198 Antisense
ACTTCGGACCATACCTTGGTCAGTT 286 101 203 Antisense
GATAATTACTACTGTTGGCTAGAAC 154 421 251 Antisense
Sequence Source Affymetrix Proprietary Database