[Home] | [Total List]

[193213_at] intermediate filament protein

Description F37B4.2 /REP_DB=WormBase Gene ID /WP=CE27378 /GEN=ifc-1 /TR=O45168 /GB=AAK18940.2 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=intermediate filament protein
Cluster 6grp_highest_10_10 > 32      6grp_high1_10_10 > 13      4grp_high_8_8 > 42      6grp_highest_nonorm > 03      6grp_total > 24      4grp_total > 54      6grp_highest_sub > De      6grp_cgc > 33      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 6558
1 2 3 4 range
A 6480.6
(3)
P 		3338
(0)
P 		2469.6
(-0.8)
P 		94.4
(-3)
A 		6386
B 6053.7
(3)
P 		3476
(0.4)
P 		3007.1
(-0.1)
P 		62.7
(-3)
A 		5991
C 6620.8
(3)
P 		3193.8
(-0.2)
P 		2633.2
(-0.7)
P 		108
(-3)
P 		6513
avr 6385
(3) 		3335.9
(0.1) 		2703.3
(-0.5) 		88.4
(-3) 		6297

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4575
1 2 3 4 5 6 range
A 4238.8
(2)
P 		4994.9
(3)
P 		3395.9
(0.9)
P 		1343.2
(-1.9)
P 		1042.9
(-2.3)
P 		508.9
(-3)
P 		4486
B 4136.5
(2.3)
P 		4633.3
(3)
P 		3977
(2)
P 		1350.1
(-1.8)
P 		1134.7
(-2.1)
P 		551.4
(-3)
P 		4082
C 4219
(2.5)
P 		4562.8
(3)
P 		3350.5
(1.2)
P 		1326.2
(-1.7)
P 		1039.5
(-2.1)
P 		420.4
(-3)
P 		4142
avr 4198.1
(2.2) 		4730.3
(3) 		3574.5
(1.4) 		1339.8
(-1.8) 		1072.4
(-2.2) 		493.6
(-3) 		4237
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2346
1 2 3 4 range
A 2359.6
(3)
P 		724.6
(-1.2)
P 		645.6
(-1.4)
P 		13.8
(-3)
A 		2346
B 1930.5
(3)
P 		858.5
(-0.4)
P 		696.8
(-0.9)
P 		13.4
(-3)
A 		1917
C 2191.7
(3)
P 		918.2
(-0.5)
P 		917.7
(-0.5)
P 		18.2
(-3)
P 		2174
avr 2160.6
(3) 		833.8
(-0.7) 		753.4
(-0.9) 		15.1
(-3) 		2146

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1653
1 2 3 4 5 6 range
A 781.4
(-0.6)
P 		1776.4
(3)
P 		739.6
(-0.8)
P 		340.7
(-2.2)
P 		314.7
(-2.3)
P 		123.9
(-3)
P 		1653
B 1439.3
(2.5)
P 		1542.2
(3)
P 		965.7
(0.4)
P 		357.6
(-2.3)
P 		461
(-1.9)
P 		205.6
(-3)
P 		1337
C 1563.8
(3)
P 		1392.3
(2.3)
P 		852.8
(0)
P 		266.7
(-2.5)
P 		336.4
(-2.2)
P 		140.7
(-3)
P 		1423
avr 1261.5
(1.7) 		1570.3
(3) 		852.7
(-0) 		321.7
(-2.3) 		370.7
(-2.1) 		156.7
(-3) 		1414
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193213_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14929
Sequence Type Exemplar sequence
Representative Public ID F37B4.2 NCBI
Target Description F37B4.2 /REP_DB=WormBase Gene ID /WP=CE27378 /GEN=ifc-1 /TR=O45168 /GB=AAK18940.2 /SUBMIT=ST.LOUIS /CHR=5 /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_071382(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071382 NCBI Caenorhabditis elegans Intermediate Filament, C family member (ifc-1) (ifc-1) mRNA, complete cds. 11/11 None
SNAP00000026934 ENSEMBL cdna:SNAP chromosome:CEL140:V:2882444:2883405:1 11/11 None
GENEFINDER00000026941 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:2881222:2883405:1 11/11 None
F37B4.2.4 ENSEMBL cdna:known chromosome:CEL140:V:2881134:2883581:1 gene:F37B4.2 11/11 None
F37B4.2.2 ENSEMBL cdna:known chromosome:CEL140:V:2881212:2883581:1 gene:F37B4.2 11/11 None
F37B4.2.5 ENSEMBL cdna:known chromosome:CEL140:V:2881214:2883569:1 gene:F37B4.2 11/11 None
F37B4.2.3 ENSEMBL cdna:known chromosome:CEL140:V:2881218:2883581:1 gene:F37B4.2 11/11 None
F37B4.2.1 ENSEMBL cdna:known chromosome:CEL140:V:2881220:2883581:1 gene:F37B4.2 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
chrV:2881221-2883405(+) 100.0 100.0
Public Domain and Genome References
Gene Title intermediate filament protein
Gene Symbol ifc-1
Ensembl F37B4.2
Entrez Gene 178747 Entrez gene
SwissProt O45168 EMBL-EBI
WormBase CE27378 Wormbase
Functional Annotations
Ortholog
ID Title Organism
HG-U133_PLUS_2:217325_AT keratin 3 hs
HG-U133A_2:217325_AT keratin 3 hs
HG-U133A:217325_AT keratin 3 hs
U133_X3P:HS.247767.0.S1_3P_AT keratin 3 hs
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 CAA50180 Cytoplasmic intermediate filament (IF) protein [Caenorhabditis elegans] gb|AAK18940.2| Intermediate filament, c protein 1 [Caenorhabditis elegans] ref|NP_503783.1| Intermediate Filament, C family member (ifc-1) [Caenorhabditis elegans] sp|O45168|IFC1_CAEEL Intermediate filament protein ifc-1 (Intermediate filament protein C1) (IF-C1) (Cel IF C1) 0.0
blast C88979 protein IFC-1 [imported] - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001664 EMBL-EBI Intermediate filament protein 4.9E-10
Sequence
Target Sequence 
>C. ELEGANS:193213_AT
gacacttagcacgacgcacagtagattagcggagattgagagcagaaacgcgtggctctt
gacgacgatcacagatcttaaacaccaacaagcagaggaagcaagaatcttcgaggcaac
cctggacgcaaagcaagcaacctatgaacagttcaaggagcgctgcacggaactcagcat
acagatggagaagctttgcgatcatgaaacgtcgctacaagcagagctggaacgctacag
agtactgctcaacggagccaacgtgacaacctatgtgtccaactcgactggagccgctgg
ttaccgatcctccacccacgtcgccactactacaaccacaacgaccaatgggtattctag
tggatacacggctggaggctacacatccggaggctacacaaccggaggatacactcgtgg
aatcaccgccggtggtgctgtcggcggaatatccactggcggatacatcggacggtcctc
ctcctcacacggaatatccgtcggtggtaacattggcggtgtctcagttggaggtcacat
caatggctaccatgcttcgggagacatcag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACACTTAGCACGACGCACAGTAGA 153 367 909 Antisense
GCAGAAACGCGTGGCTCTTGACGAC 282 311 950 Antisense
AAGAATCTTCGAGGCAACCCTGGAC 234 151 1011 Antisense
GAGCGCTGCACGGAACTCAGCATAC 181 387 1066 Antisense
CGGAGCCAACGTGACAACCTATGTG 596 241 1161 Antisense
CAACCTATGTGTCCAACTCGACTGG 353 187 1175 Antisense
CACGGCTGGAGGCTACACATCCGGA 515 197 1275 Antisense
TGCTGTCGGCGGAATATCCACTGGC 405 579 1344 Antisense
ACTGGCGGATACATCGGACGGTCCT 188 95 1363 Antisense
GAGGTCACATCAATGGCTACCATGC 363 403 1439 Antisense
GCTACCATGCTTCGGGAGACATCAG 122 303 1454 Antisense
Sequence Source Affymetrix Proprietary Database