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[193108_s_at] intermediate filament protein

Description W10G6.3 /REP_DB=WormBase Gene ID /WP=CE18354 /GEN=ifa-2 /TR=O02365 /GB=CAB03486.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=intermediate filament protein
Cluster 6grp_highest_10_10 > 11      6grp_high1_10_10 > 01      6grp_highest_nonorm > 11      6grp_total > 23      4grp_total > 60      6grp_cgc > 20      6grp_high1_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2037
1 2 3 4 range
A 1499.4
(1.3)
P 		2076
(3)
P 		1564
(1.5)
P 		39.1
(-3)
A 		2037
B 1765.8
(2.7)
P 		1856.6
(3)
P 		1667.3
(2.4)
P 		40.8
(-3)
A 		1816
C 1544
(2.3)
P 		1726.4
(3)
P 		1583
(2.5)
P 		118.1
(-3)
A 		1608
avr 1603.1
(2.1) 		1886.3
(3) 		1604.8
(2.1) 		66
(-3) 		1820

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2450
1 2 3 4 5 6 range
A 2603.6
(3)
P 		1643.7
(0.5)
P 		1412.1
(-0)
P 		1301.1
(-0.3)
P 		686
(-1.9)
P 		255.3
(-3)
P 		2348
B 2356.7
(3)
P 		1509.7
(0.6)
P 		1490.8
(0.5)
P 		1169.2
(-0.4)
P 		753
(-1.5)
P 		238.9
(-3)
P 		2118
C 2641.7
(3)
P 		1279.4
(-0.3)
P 		1788.9
(0.9)
P 		1164.9
(-0.6)
P 		779.1
(-1.6)
P 		191.9
(-3)
P 		2450
avr 2534
(3) 		1477.6
(0.3) 		1563.9
(0.5) 		1211.7
(-0.4) 		739.4
(-1.7) 		228.7
(-3) 		2305
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 557
1 2 3 4 range
A 545.9
(3)
P 		450.6
(1.9)
P 		408.9
(1.5)
P 		5.7
(-3)
A 		540
B 563.1
(3)
P 		458.5
(1.9)
P 		386.3
(1.1)
P 		8.7
(-3)
A 		554
C 511.1
(2.5)
P 		496.4
(2.4)
P 		551.7
(3)
P 		19.9
(-3)
A 		532
avr 540
(3) 		468.5
(2.2) 		449
(2) 		11.4
(-3) 		529

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 917
1 2 3 4 5 6 range
A 479.9
(1.8)
P 		584.6
(3)
P 		307.5
(-0.2)
P 		330
(0.1)
P 		207
(-1.3)
P 		62.2
(-3)
P 		522
B 820
(3)
P 		502.5
(0.4)
P 		362
(-0.8)
P 		309.7
(-1.2)
P 		305.9
(-1.2)
P 		89.1
(-3)
P 		731
C 979.2
(3)
P 		390.4
(-0.9)
P 		455.3
(-0.4)
P 		234.3
(-1.9)
P 		252.1
(-1.8)
P 		64.2
(-3)
P 		915
avr 759.7
(3) 		492.5
(0.7) 		374.9
(-0.4) 		291.3
(-1.1) 		255
(-1.4) 		71.8
(-3) 		688
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193108_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17570
Sequence Type Exemplar sequence
Representative Public ID W10G6.3 NCBI
Target Description W10G6.3 /REP_DB=WormBase Gene ID /WP=CE18354 /GEN=ifa-2 /TR=O02365 /GB=CAB03486.1 /SUBMIT=HINXTON /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 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_078247(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078247 NCBI Caenorhabditis elegans MUscle Attachment abnormal family member (mua-6) (mua-6) mRNA, complete cds. 11/11 None
SNAP00000020042 ENSEMBL cdna:SNAP chromosome:CEL140:X:16262394:16265594:-1 11/11 None
GENEFINDER00000020044 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:16262394:16265594:-1 9/11 None
W10G6.3.2 ENSEMBL cdna:known chromosome:CEL140:X:16262202:16265600:-1 gene:W10G6.3 11/11 None
W10G6.3.1 ENSEMBL cdna:known chromosome:CEL140:X:16262202:16265599:-1 gene:W10G6.3 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:16262393-16265594(-) 100.0 100.0
Public Domain and Genome References
Gene Title intermediate filament protein
Gene Symbol mua-6
Ensembl W10G6.3
Entrez Gene 181698 Entrez gene
SwissProt O02365 EMBL-EBI
WormBase CE18354 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
5198 structural molecule activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB03486 Hypothetical protein W10G6.3 [Caenorhabditis elegans] emb|CAA50183.1| Cytoplasmic intermediate filament (IF) protein [Caenorhabditis elegans] ref|NP_510648.1| MUscle Attachment abnormal family member (mua-6) [Caenorhabditis elegans] sp|O02365|IFA2_CAEEL Intermediate filament protein ifa-2 (Intermediate filament protein A2) (IF-A2) (Cel IF A2) 0.0
blast CAB03487 Hypothetical protein F52E10.5 [Caenorhabditis elegans] emb|CAA91057.4| Hypothetical protein F52E10.5 [Caenorhabditis elegans] emb|CAA50179.1| Cytoplasmic intermediate filament (IF) protein [Caenorhabditis elegans] ref|NP_510649.3| Intermediate Filament, A family member (ifa-3) [Caenorhabditis elegans] sp|Q21065|IFA3_CAEEL Intermediate filament protein ifa-3 (Intermediate filament protein A3) (IF-A3) (Cel IF A3) 0.0
blast CAE69986 Hypothetical protein CBG16385 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001664 EMBL-EBI Intermediate filament protein 3.1E-71
Pfam IPR001322 EMBL-EBI Intermediate filament, C-terminal 2.5E-77
Pfam IPR001322 EMBL-EBI Intermediate filament, C-terminal 1.1E-45
Pfam IPR001322 EMBL-EBI Intermediate filament, C-terminal 1.7E-22
Sequence
Target Sequence 
>C. ELEGANS:193108_S_AT
aaatccgcaagctccgtgaagaatgccaagctctcatggtcgagctccagatgctccttg
acactaaacaaacccttgatggggagctcaaggtttacagacaaatgttggaaggtaatt
ctgaaggaaatgggcttcggcaacttgtcgagaaggtcgtccgcacatctgcaatcaatg
aagaggctgacaccgaaacgatgcgcgtagtcaaaggagaacactccagcagaacatctt
atcaacgttcagctaaaggaaatgtggcgatcaaggaaacctccccagaaggcaaatttg
tcattttggaaaacacacacagagccaaagaagagccactcggagactggaagcttaaga
gaaagatcgacggaaaacgcgagatcgtcttcaccttcccatccgactacatcctccacc
cattccaatctgtcaagatcttcgcccgcggacaaggaatcgccaatcctccagaagtgc
tcattttcgaaggtgacgaaacattcggtgttggcgccaacgttcaaacaatcct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAATCCGCAAGCTCCGTGAAGAATG 97 119 1154 Antisense
GAAGAATGCCAAGCTCTCATGGTCG 289 341 1171 Antisense
TCCAGATGCTCCTTGACACTAAACA 288 589 1199 Antisense
GGAAATGGGCTTCGGCAACTTGTCG 555 525 1279 Antisense
TTGTCGAGAAGGTCGTCCGCACATC 479 705 1298 Antisense
TGTGGCGATCAAGGAAACCTCCCCA 401 555 1416 Antisense
CCACCCATTCCAATCTGTCAAGATC 158 275 1569 Antisense
GATCTTCGCCCGCGGACAAGGAATC 100 379 1590 Antisense
ACAAGGAATCGCCAATCCTCCAGAA 524 113 1605 Antisense
GACGAAACATTCGGTGTTGGCGCCA 62 381 1648 Antisense
TTGGCGCCAACGTTCAAACAATCCT 627 705 1664 Antisense
Sequence Source Affymetrix Proprietary Database