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[193214_s_at]

Description K05B2.3 /REP_DB=WormBase Gene ID /WP=CE02801 /GEN=ifa-4 /TR=Q9GYN4 /GB=AAF99979.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=Intermediate filament protein
Cluster 6grp_highest_10_10 > 97      6grp_high1_10_10 > 89      4grp_highest_8_8 > 38      4grp_high_8_8 > 03      6grp_highest_nonorm > 96      6grp_total > 88      4grp_total > 13      6grp_highest_sub > Cu      6grp_cgc > 69      6grp_high1_sub > Cu      6grp_cgc_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 677
1 2 3 4 range
A 700.5
(1.2)
P 		319.8
(-3)
P 		332.8
(-2.9)
P 		865.4
(3)
P 		546
B 539.5
(-1.3)
P 		466.1
(-2)
P 		362
(-3)
P 		996.5
(3)
P 		635
C 762.7
(1.4)
P 		465
(-3)
P 		483.2
(-2.7)
P 		867.4
(3)
P 		402
avr 667.6
(0.2) 		417
(-2.7) 		392.7
(-3) 		909.8
(3) 		517

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1308
1 2 3 4 5 6 range
A 545.2
(-3)
P 		597.8
(-2.7)
P 		674.6
(-2.3)
P 		691.2
(-2.2)
P 		1046.2
(-0.4)
P 		1701.3
(3)
P 		1156
B 1027.5
(0.5)
P 		461.7
(-2.6)
P 		392.9
(-3)
P 		744.8
(-1.1)
P 		1169.3
(1.3)
P 		1478
(3)
P 		1085
C 840.2
(-0.6)
P 		473.2
(-3)
P 		496.8
(-2.8)
P 		525.9
(-2.7)
P 		1234.6
(2)
P 		1384.2
(3)
P 		911
avr 804.3
(-1.3) 		510.9
(-3) 		521.4
(-2.9) 		654
(-2.2) 		1150
(0.8) 		1521.2
(3) 		1010
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 186
1 2 3 4 range
A 255
(3)
P 		69.4
(-3)
P 		87
(-2.4)
P 		126.7
(-1.1)
P 		186
B 172
(1.1)
P 		115.1
(-1.5)
P 		83.9
(-3)
P 		212.3
(3)
P 		128
C 252.5
(3)
P 		133.7
(-3)
P 		168.4
(-1.2)
P 		146.3
(-2.4)
P 		119
avr 226.5
(3) 		106.1
(-3) 		113.1
(-2.7) 		161.8
(-0.2) 		120

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 456
1 2 3 4 5 6 range
A 100.5
(-3)
P 		212.6
(-0.9)
P 		146.9
(-2.1)
P 		175.3
(-1.6)
P 		315.7
(1.1)
P 		414.2
(3)
P 		314
B 357.5
(0.5)
P 		153.7
(-2.2)
P 		95.4
(-3)
P 		197.3
(-1.7)
P 		475.1
(2)
P 		551.1
(3)
P 		456
C 311.4
(0.4)
P 		144.4
(-2.4)
P 		126.4
(-2.7)
P 		105.8
(-3)
P 		399.5
(1.9)
P 		463.4
(3)
P 		358
avr 256.5
(-0.7) 		170.2
(-2.2) 		122.9
(-3) 		159.5
(-2.4) 		396.8
(1.7) 		476.2
(3) 		353
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193214_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16919
Sequence Type Exemplar sequence
Representative Public ID K05B2.3 NCBI
Target Description K05B2.3 /REP_DB=WormBase Gene ID /WP=CE02801 /GEN=ifa-4 /TR=Q9GYN4 /GB=AAF99979.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=Intermediate filament protein
Cluster Evidence This cluster is supported by a Sanger Annotation.
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_076435
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
GENEFINDER00000040756 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:4912563:4915943:-1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_076435 8/11 Cross Hyb Matching Probes None
SNAP00000040751 8/11 Cross Hyb Matching Probes None
K05B2.3.3 8/11 Cross Hyb Matching Probes None
K05B2.3.1 8/11 Cross Hyb Matching Probes None
K05B2.3.2 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:4912580-4915887(-) 100.0 100.0
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA50181 Cytoplasmic intermediate filament (IF) protein [Caenorhabditis elegans] sp|P90900|IFA4_CAEEL Intermediate filament protein ifa-4 (Intermediate filament protein A4) (IF-A4) (Cel IF A4) 0.0
blast T16562 hypothetical protein K05B2.3 - Caenorhabditis elegans 0.0
blast AAF99979 Intermediate filament, a protein 4 [Caenorhabditis elegans] ref|NP_508836.3| Intermediate Filament, A family member (ifa-4) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001664 EMBL-EBI Intermediate filament protein 1.3E-75
Pfam IPR001322 EMBL-EBI Intermediate filament, C-terminal 1.2E-65
Sequence
Target Sequence 
>C. ELEGANS:193214_S_AT
gaagagaatcgcgcaggtctacgtcagctcgtcgagcaggttgttaagacaacatctatt
catcaaaccaaggaaattgaaattcattgttctcaatacgagactatcacttttgacgac
gttccccatacccattaccttgtcggtgataaaattcgcagaaagccgcacgagagtctt
cgagttctcaaaggtgaaacgactagtcattcgtcgtattccagatcagcaaaaggaaat
attgcaattcaggaagccgagccatctggaaagtacattgtactggagaacatctcaaga
cgtgatgagaacatcggagactggaaactccgtcggaagattgccggaaaacgcgaaatc
gtgttcaccttcccgcgcgagttcacccttcgtgctcaaaagagcgtgaaaattttcgca
cgtgggcagggagttcattccccacccgatagtcttgtgtacgacctcgaagactcgttc
ggcaccggaaacgacgtcgttactactctcta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGAGAATCGCGCAGGTCTACGTC 583 337 1129 Antisense
GACTATCACTTTTGACGACGTTCCC 229 371 1230 Antisense
CCATACCCATTACCTTGTCGGTGAT 166 271 1254 Antisense
GAAAGCCGCACGAGAGTCTTCGAGT 429 359 1289 Antisense
GTCATTCGTCGTATTCCAGATCAGC 305 467 1334 Antisense
GCAATTCAGGAAGCCGAGCCATCTG 40 323 1372 Antisense
GTTCACCCTTCGTGCTCAAAAGAGC 195 443 1509 Antisense
GTGGGCAGGGAGTTCATTCCCCACC 236 489 1550 Antisense
CCCCACCCGATAGTCTTGTGTACGA 98 263 1568 Antisense
TACGACCTCGAAGACTCGTTCGGCA 574 645 1588 Antisense
GAAACGACGTCGTTACTACTCTCTA 614 355 1616 Antisense
Sequence Source Affymetrix Proprietary Database