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[193321_at]

Description R04E5.10 /REP_DB=WormBase Gene ID /WP=CE04802 /TR=Q9GYL1 /GB=AAG00007.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=cytoplasmic intermeidate filament protein
Cluster 6grp_highest_10_10 > 32      6grp_high1_10_10 > 12      4grp_highest_8_8 > 25      4grp_high_8_8 > 59      6grp_highest_nonorm > 22      6grp_total > 24      4grp_total > 61      6grp_highest_sub > De      6grp_cgc > 34      6grp_high1_sub > De      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      6grp_rule_based > S2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2374
1 2 3 4 range
A 2638.3
(2.3)
P 		2392
(1.6)
P 		2869.5
(3)
P 		750.4
(-3)
P 		2119
B 2957.9
(2.8)
P 		2623.9
(1.9)
P 		3050.8
(3)
P 		680.1
(-3)
P 		2371
C 3034.1
(3)
P 		2287.1
(1.1)
P 		2982.5
(2.9)
P 		677.3
(-3)
P 		2357
avr 2876.8
(2.8) 		2434.3
(1.6) 		2967.6
(3) 		702.6
(-3) 		2265

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1303
1 2 3 4 5 6 range
A 1876.9
(1.6)
P 		2134.1
(3)
P 		1459.2
(-0.6)
P 		1399.5
(-0.9)
P 		1000.6
(-3)
P 		1067.5
(-2.6)
P 		1134
B 1670.3
(2.2)
P 		1785.9
(3)
P 		1754.4
(2.8)
P 		1231.3
(-0.7)
P 		895.9
(-3)
P 		911.3
(-2.9)
P 		890
C 1639
(1.5)
P 		1900.8
(3)
P 		1833.9
(2.6)
P 		1238.8
(-0.7)
P 		831.6
(-3)
P 		1108.9
(-1.4)
P 		1069
avr 1728.7
(1.8) 		1940.3
(3) 		1682.5
(1.5) 		1289.9
(-0.8) 		909.4
(-3) 		1029.2
(-2.3) 		1031
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 930
1 2 3 4 range
A 960.6
(3)
P 		519.2
(-0.1)
P 		750.1
(1.5)
P 		109.8
(-3)
P 		851
B 943.3
(3)
P 		648
(0.8)
P 		706.9
(1.2)
P 		144.9
(-3)
P 		798
C 1004.4
(2.8)
P 		657.5
(0.5)
P 		1039.5
(3)
P 		114.2
(-3)
P 		925
avr 969.4
(3) 		608.2
(0.4) 		832.2
(2) 		123
(-3) 		846

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 510
1 2 3 4 5 6 range
A 346
(-2)
P 		759
(3)
P 		317.8
(-2.3)
P 		355
(-1.9)
P 		301.9
(-2.5)
P 		259.9
(-3)
P 		499
B 581.2
(2.7)
P 		594.4
(3)
P 		426
(-0.8)
P 		326.1
(-3)
P 		364
(-2.2)
P 		339.8
(-2.7)
P 		268
C 607.5
(3)
P 		580
(2.5)
P 		466.8
(0.6)
P 		249.1
(-3)
P 		269.1
(-2.7)
P 		371.2
(-1)
P 		358
avr 511.6
(0.6) 		644.5
(3) 		403.5
(-1.3) 		310.1
(-3) 		311.7
(-3) 		323.6
(-2.8) 		334
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193321_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16661
Sequence Type Exemplar sequence
Representative Public ID R04E5.10 NCBI
Target Description R04E5.10 /REP_DB=WormBase Gene ID /WP=CE04802 /TR=Q9GYL1 /GB=AAG00007.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=cytoplasmic intermeidate filament protein
Cluster Evidence This cluster is supported by a 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_001029659(11), NM_001029660(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029659 NCBI Caenorhabditis elegans Intermediate Filament, D family member (ifd-1) (ifd-1) mRNA, complete cds. 11/11 None
NM_001029660 NCBI Caenorhabditis elegans Intermediate Filament, D family member (ifd-1) (ifd-1) mRNA, complete cds. 11/11 None
SNAP00000036370 ENSEMBL cdna:SNAP chromosome:CEL140:X:8820829:8824375:-1 11/11 None
GENEFINDER00000036375 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:8820918:8824375:-1 11/11 None
R04E5.10a ENSEMBL cdna:known chromosome:CEL140:X:8820654:8824375:-1 gene:R04E5.10 11/11 None
R04E5.10b ENSEMBL cdna:known chromosome:CEL140:X:8820663:8824385:-1 gene:R04E5.10 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:8820916-8824374(-) 100.0 100.0
Public Domain and Genome References
Ensembl R04E5.10
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAG00007 Intermediate filament, d protein 1, isoform a [Caenorhabditis elegans] ref|NP_001024830.1| Intermediate Filament, D family member (ifd-1) [Caenorhabditis elegans] sp|Q86DC6|IFD1_CAEEL Intermediate filament protein ifd-1 (Intermediate filament protein D1) (IF-D1) (Cel IF D1) 0.0
blast T28876 hypothetical protein R04E5.10 - Caenorhabditis elegans 0.0
blast AAP31430 Intermediate filament, d protein 1, isoform b [Caenorhabditis elegans] ref|NP_001024831.1| Intermediate Filament, D family member (ifd-1) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001664 EMBL-EBI Intermediate filament protein 9.2E-10
Pfam IPR001664 EMBL-EBI Intermediate filament protein 7.9E-11
Sequence
Target Sequence 
>C. ELEGANS:193321_AT
ccagatcaacctccgcagtgaaattgctcactaccgcaagttgatggaacaagctgaaaa
tctgcggacaagctaccaaagcgatttcgtaatcgatactccatcgcctttgatgcgcac
atcttctcatcattatggatcatcatattcactgaatgttagagatacacataacaaaac
agtacaccatgataactacgacattagctccgcatcgaccattaacacccaacagttccg
aagctatggaaaaggagatgttaagattattgagcacaaagatgaatcaatcgtcattga
aaactcaaacagctataagtccaaagatctttctaactggaaaatcaatcattatgtgaa
tggagcgctaactggaacgttcatcttaccagttgcaactcacattcacccacatgagaa
gatttcgattcattcattgaaatctccgaatttaatggatgatattgttgctactcaaat
ctacagcttcgatttctccaaaaacac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCAGATCAACCTCCGCAGTGAAATT 32 271 1164 Antisense
GAAATTGCTCACTACCGCAAGTTGA 21 365 1183 Antisense
AATCTGCGGACAAGCTACCAAAGCG 499 169 1222 Antisense
GTAATCGATACTCCATCGCCTTTGA 291 461 1252 Antisense
GATGCGCACATCTTCTCATCATTAT 270 415 1275 Antisense
AACACCCAACAGTTCCGAAGCTATG 646 135 1387 Antisense
GGAGCGCTAACTGGAACGTTCATCT 228 521 1525 Antisense
GAACGTTCATCTTACCAGTTGCAAC 611 347 1538 Antisense
TACCAGTTGCAACTCACATTCACCC 584 649 1550 Antisense
GTTGCTACTCAAATCTACAGCTTCG 474 439 1630 Antisense
ACAGCTTCGATTTCTCCAAAAACAC 549 107 1646 Antisense
Sequence Source Affymetrix Proprietary Database