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[192454_s_at] cytoplasmic intermediate filament

Description F25E2.4 /REP_DB=WormBase Gene ID /WP=CE07133 /TR=Q19782 /GB=AAA91257.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=cytoplasmic intermediate filament
Cluster 6grp_highest_10_10 > 86      6grp_high1_10_10 > 77      4grp_highest_8_8 > 34      4grp_high_8_8 > 48      6grp_highest_nonorm > 94      6grp_total > 67      4grp_total > 63      6grp_highest_sub > Da      6grp_cgc > 48      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 260
1 2 3 4 range
A 738.6
(3)
P 		628.4
(-3)
P 		699.1
(0.8)
P 		663.6
(-1.1)
P 		110
B 747.9
(3)
P 		717.7
(2.1)
P 		692.5
(1.3)
P 		553.6
(-3)
P 		194
C 814
(3)
P 		622.3
(-3)
P 		739.4
(0.7)
P 		670.5
(-1.5)
P 		192
avr 766.8
(3) 		656.1
(-1.8) 		710.3
(0.5) 		629.2
(-3) 		138

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 890
1 2 3 4 5 6 range
A 531.6
(-1.4)
P 		475
(-1.9)
P 		425
(-2.4)
P 		360.7
(-3)
P 		534.1
(-1.4)
P 		1001.2
(3)
P 		641
B 371.1
(-3)
P 		563.8
(-1.4)
P 		473
(-2.2)
P 		414.3
(-2.6)
P 		566
(-1.4)
P 		1097.1
(3)
P 		726
C 357.7
(-3)
P 		587.9
(-1.4)
P 		381.2
(-2.8)
P 		451.1
(-2.4)
P 		451.5
(-2.4)
P 		1247.3
(3)
P 		890
avr 420.1
(-2.9) 		542.2
(-1.9) 		426.4
(-2.8) 		408.7
(-3) 		517.2
(-2.1) 		1115.2
(3) 		707
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 172
1 2 3 4 range
A 268.9
(3)
P 		136.4
(-1.6)
P 		182.8
(-0)
P 		97.1
(-3)
P 		172
B 238.5
(3)
P 		177.3
(-0)
P 		160.5
(-0.9)
P 		118
(-3)
P 		121
C 269.5
(3)
P 		178.9
(-0.5)
P 		257.7
(2.5)
P 		113.1
(-3)
P 		156
avr 259
(3) 		164.2
(-0.8) 		200.3
(0.6) 		109.4
(-3) 		150

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 327
1 2 3 4 5 6 range
A 98
(-2.7)
P 		168.9
(0)
P 		92.6
(-3)
P 		91.5
(-3)
P 		161.2
(-0.3)
P 		243.8
(3)
P 		152
B 129.1
(-2.6)
P 		187.7
(-1.4)
P 		114.9
(-2.9)
P 		109.7
(-3)
P 		229.9
(-0.6)
P 		409.1
(3)
P 		299
C 132.6
(-2.2)
P 		179.4
(-1.4)
P 		97
(-2.9)
P 		90.7
(-3)
P 		146.1
(-2)
P 		417.6
(3)
P 		327
avr 119.9
(-2.5) 		178.7
(-1.1) 		101.5
(-2.9) 		97.3
(-3) 		179.1
(-1.1) 		356.8
(3) 		260
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192454_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18200
Sequence Type Exemplar sequence
Representative Public ID F25E2.4 NCBI
Target Description F25E2.4 /REP_DB=WormBase Gene ID /WP=CE07133 /TR=Q19782 /GB=AAA91257.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=cytoplasmic intermediate filament
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_075759(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075759 NCBI Caenorhabditis elegans Intermediate Filament, D family member (ifd-2) (ifd-2) mRNA, complete cds. 11/11 None
SNAP00000017577 ENSEMBL cdna:SNAP chromosome:CEL140:X:814022:815916:-1 11/11 None
GENEFINDER00000017586 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:814022:815916:-1 11/11 None
F25E2.4 ENSEMBL cdna:known chromosome:CEL140:X:813851:815928:-1 gene:F25E2.4 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:814021-815916(-) 100.0 100.0
Public Domain and Genome References
Gene Title cytoplasmic intermediate filament
Gene Symbol ifd-2
Ensembl F25E2.4
Entrez Gene 180430 Entrez gene
SwissProt Q19782 EMBL-EBI
WormBase CE07133 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 AAA91257 Intermediate filament, d protein 2 [Caenorhabditis elegans] ref|NP_508160.1| Intermediate Filament, D family member (ifd-2) [Caenorhabditis elegans] sp|Q19782|IFD2_CAEEL Intermediate filament protein ifd-2 (Intermediate filament protein D2) (IF-D2) (Cel IF D2) 0.0
blast CAE63616 Hypothetical protein CBG08109 [Caenorhabditis briggsae] 0.0
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) 1.0E-152
Protein Domains
Database ID Description E-Value
Pfam IPR001664 EMBL-EBI Intermediate filament protein 1.4E-9
Sequence
Target Sequence 
>C. ELEGANS:192454_S_AT
gggactatttccacaatgagctgcacgcggcgatgaaagagattcgagaccgattcgaga
aggattcacgtgccgccagaaagacatgggaggattggtatcacaaaaagatcacggaaa
tcaagaagggatccgaaagctatagctcaatacaaaaccaggcaagagaagagattcttc
gaattaggtcgattgtcaacgagttccgaggaaagctttcagattctgaaactatcaatc
aacaacttatcaaacgaatcgacgacttgcacttccaagacaaggaaaatctaagattgt
tcgaaattgcactcaatgaaaaagaaaatctagtaattaaaatgagagaggaatgcacaa
aactttcagtggaacttgacaaattagtagagaaccagatcaacttgcgaaacgaaatca
accattaccgcaaactaatggaaaacgctgagcacctccgtaccacagttcaaacccacg
tgacctataatgctccaccgccacccttgccacagtcaggccctagaacaacttcctacc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGGACTATTTCCACAATGAGCTGCA 536 493 767 Antisense
ATGAGCTGCACGCGGCGATGAAAGA 257 45 782 Antisense
GATTCACGTGCCGCCAGAAAGACAT 699 429 829 Antisense
GAAGGGATCCGAAAGCTATAGCTCA 184 335 891 Antisense
GGTCGATTGTCAACGAGTTCCGAGG 548 499 953 Antisense
AACGAATCGACGACTTGCACTTCCA 397 145 1019 Antisense
GAAATCAACCATTACCGCAAACTAA 338 363 1180 Antisense
AATGGAAAACGCTGAGCACCTCCGT 109 161 1203 Antisense
GTACCACAGTTCAAACCCACGTGAC 562 457 1226 Antisense
CCACGTGACCTATAATGCTCCACCG 344 275 1242 Antisense
TCAGGCCCTAGAACAACTTCCTACC 682 619 1282 Antisense
Sequence Source Affymetrix Proprietary Database