[Home] | [Total List]

[193192_at] intermediate filament protein

Description F52E10.5 /REP_DB=WormBase Gene ID /WP=CE10838 /GEN=ifa-3 /TR=Q94367 /GB=CAB03487.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=intermediate filament protein
Cluster 6grp_total > 47      4grp_total > 26      6grp_cgc > 26      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 61
1 2 3 4 range
A 3.8
(-2.9)
A 		21.6
(1.3)
A 		3.5
(-3)
A 		28.5
(3)
A 		25
B 19.1
(3)
A 		19
(3)
A 		14.7
(1.4)
A 		2.2
(-3)
A 		17
C 2.3
(-3)
A 		40.5
(0.8)
A 		4
(-2.8)
A 		63.2
(3)
A 		61
avr 8.4
(-2.7) 		27
(1.9) 		7.4
(-3) 		31.3
(3) 		24

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 58
1 2 3 4 5 6 range
A 47.1
(3)
A 		3.8
(-3)
A 		3.7
(-3)
A 		24.2
(-0.2)
A 		7.9
(-2.4)
A 		5.5
(-2.8)
A 		43
B 7.5
(-1.5)
A 		4.4
(-2.8)
A 		5.8
(-2.2)
A 		15.4
(1.9)
A 		3.9
(-3)
A 		17.9
(3)
A 		14
C 33.7
(0.1)
A 		19.9
(-1.4)
A 		19.9
(-1.4)
A 		53.6
(2.2)
A 		4.6
(-3)
A 		61.4
(3)
A 		57
avr 29.4
(2.6) 		9.4
(-2.1) 		9.8
(-2) 		31.1
(3) 		5.5
(-3) 		28.3
(2.3) 		26
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11
1 2 3 4 range
A 1.4
(-2.2)
A 		4.7
(3)
A 		0.9
(-3)
A 		4.2
(2.2)
A 		4
B 6.1
(3)
A 		4.7
(1.5)
A 		3.4
(0.1)
A 		0.5
(-3)
A 		6
C 0.8
(-3)
A 		11.6
(3)
A 		1.4
(-2.7)
A 		10.7
(2.5)
A 		11
avr 2.8
(-1.9) 		7
(3) 		1.9
(-3) 		5.1
(0.8) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 20
1 2 3 4 5 6 range
A 8.7
(3)
A 		1.3
(-2.6)
A 		0.8
(-3)
A 		6.1
(1)
A 		2.4
(-1.8)
A 		1.3
(-2.6)
A 		8
B 2.6
(-1.6)
A 		1.4
(-3)
A 		1.4
(-3)
A 		4.1
(0.1)
A 		1.6
(-2.8)
A 		6.7
(3)
A 		5
C 12.5
(0.5)
A 		6.1
(-1.5)
A 		5.1
(-1.9)
A 		10.8
(-0.1)
A 		1.5
(-3)
A 		20.5
(3)
A 		19
avr 7.9
(1.8) 		2.9
(-2.1) 		2.4
(-2.5) 		7
(1.1) 		1.8
(-3) 		9.5
(3) 		8
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193192_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17711
Sequence Type Exemplar sequence
Representative Public ID F52E10.5 NCBI
Target Description F52E10.5 /REP_DB=WormBase Gene ID /WP=CE10838 /GEN=ifa-3 /TR=Q94367 /GB=CAB03487.1 /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 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_078248
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
F52E10.5 ENSEMBL cdna:known chromosome:CEL140:X:16267170:16269969:-1 gene:F52E10.5 None
NM_078248 NCBI Caenorhabditis elegans Intermediate Filament, A family member (ifa-3) (ifa-3) mRNA, complete cds. None
SNAP00000020043 ENSEMBL cdna:SNAP chromosome:CEL140:X:16267407:16269607:-1 None
SNAP00000003303 ENSEMBL cdna:SNAP chromosome:CEL140:X:16269701:16269964:-1 None
GENEFINDER00000003305 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:16269701:16269964:-1 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:16267360-16269964(-) 100.0 100.0
Public Domain and Genome References
Gene Title intermediate filament protein
Gene Symbol ifa-3
Ensembl F52E10.5
Entrez Gene 181699 Entrez gene
SwissProt Q21065 EMBL-EBI
WormBase CE34875 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 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 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 CAE69986 Hypothetical protein CBG16385 [Caenorhabditis briggsae] 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) 4.0E-43
Protein Domains
Database ID Description E-Value
Pfam IPR001664 EMBL-EBI Intermediate filament protein 1.3E-59
Pfam IPR001322 EMBL-EBI Intermediate filament, C-terminal 2.4E-75
Pfam IPR001664 EMBL-EBI Intermediate filament protein 1.1E-42
Pfam IPR001322 EMBL-EBI Intermediate filament, C-terminal 6.6E-68
Sequence
Target Sequence 
>C. ELEGANS:193192_AT
gttacaggatgtttctgatttcgaagttgaaatcgaagtctccccagaaggcaaatttgt
catcttggaaaacacgcacagagacaaagaagagccactcggagattggaagctgaaaag
aaagattgacggaaaacgcgagatcgtctttactttcccatccgactatatcctccaccc
ggttcaaactgtcaaggctgcatgccaaactgtcaaaaaaacggtctatttccagatttt
cgcccgcgggaacggtgttgccaatcctccagaagttctagttttcgaaggtgacgacac
atttggtgctggtgccaatgttcaaacaatcctctacaacaacagtggagaggtaactca
agccaaaatttcaaaagtatttagaatctttttttgcaggaacgcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTACAGGATGTTTCTGATTTCGAA 208 447 1536 Antisense
TGAAATCGAAGTCTCCCCAGAAGGC 88 573 1563 Antisense
GTCATCTTGGAAAACACGCACAGAG 661 467 1594 Antisense
CCACCCGGTTCAAACTGTCAAGGCT 438 257 1710 Antisense
AGGCTGCATGCCAAACTGTCAAAAA 67 55 1730 Antisense
AATCCTCCAGAAGTTCTAGTTTTCG 491 165 1798 Antisense
GTGACGACACATTTGGTGCTGGTGC 261 483 1826 Antisense
GTGCTGGTGCCAATGTTCAAACAAT 529 477 1841 Antisense
AAACAATCCTCTACAACAACAGTGG 682 127 1859 Antisense
GAGAGGTAACTCAAGCCAAAATTTC 150 375 1883 Antisense
TAGAATCTTTTTTTGCAGGAACGCG 432 651 1917 Antisense
Sequence Source Affymetrix Proprietary Database