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[175020_at]

Description CEK111F7R_rc /REP_DB=TREMBL Accession /GB=D72943 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk111f7 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 03      6grp_high1_10_10 > 12      4grp_highest_8_8 > 32      4grp_high_8_8 > 51      6grp_highest_nonorm > 15      6grp_total > 23      4grp_total > 61      6grp_highest_sub > De      6grp_cgc > 70      6grp_high1_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5084
1 2 3 4 range
A 5732.6
(3)
P 		4530.6
(1.6)
P 		4009.9
(1)
P 		648.8
(-3)
P 		5084
B 4985.6
(3)
P 		4934.6
(2.9)
P 		4806.1
(2.7)
P 		990.9
(-3)
P 		3995
C 5395.7
(3)
P 		4497.1
(1.8)
P 		4589
(1.9)
P 		1000.8
(-3)
P 		4395
avr 5371.3
(3) 		4654.1
(2) 		4468.3
(1.8) 		880.2
(-3) 		4491

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5126
1 2 3 4 5 6 range
A 6770.1
(3)
P 		5979.5
(1.9)
P 		5921.5
(1.8)
P 		4002.4
(-1)
P 		4857.1
(0.3)
P 		2586.8
(-3)
P 		4183
B 7695.7
(3)
P 		5517.6
(0.5)
P 		7147.3
(2.4)
P 		4791.4
(-0.4)
P 		3526.8
(-1.9)
P 		2569.4
(-3)
P 		5126
C 6235.2
(3)
P 		5996.6
(2.6)
P 		6089.1
(2.7)
P 		5496.2
(1.7)
P 		3789.9
(-1.4)
P 		2873.3
(-3)
P 		3362
avr 6900.3
(3) 		5831.2
(1.5) 		6386
(2.3) 		4763.3
(-0) 		4057.9
(-1) 		2676.5
(-3) 		4224
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1992
1 2 3 4 range
A 2087.2
(3)
P 		983.5
(-0.3)
P 		1048.3
(-0.1)
P 		95
(-3)
P 		1992
B 1589.9
(3)
P 		1218.7
(1.4)
P 		1113.7
(0.9)
P 		211.2
(-3)
P 		1379
C 1786.1
(3)
P 		1292.9
(1.2)
P 		1599.4
(2.3)
P 		168.7
(-3)
P 		1617
avr 1821.1
(3) 		1165
(0.6) 		1253.8
(1) 		158.3
(-3) 		1663

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2048
1 2 3 4 5 6 range
A 1248
(-0.5)
P 		2126.6
(3)
P 		1289.6
(-0.4)
P 		1015.1
(-1.5)
P 		1465.6
(0.4)
P 		629.8
(-3)
P 		1497
B 2677.7
(3)
P 		1836.6
(0.1)
P 		1735.6
(-0.3)
P 		1269.1
(-1.9)
P 		1432.9
(-1.3)
P 		958.1
(-3)
P 		1720
C 2311.1
(3)
P 		1829.7
(0.9)
P 		1549.8
(-0.4)
P 		1105.3
(-2.4)
P 		1226.4
(-1.8)
P 		961.9
(-3)
P 		1349
avr 2078.9
(3) 		1931
(2.3) 		1525
(0.3) 		1129.8
(-1.6) 		1375
(-0.4) 		849.9
(-3) 		1229
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175020_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20651
Sequence Type Exemplar sequence
Representative Public ID CEK111F7R NCBI
Target Description CEK111F7R_rc /REP_DB=TREMBL Accession /GB=D72943 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk111f7 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_062735(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062735 NCBI Caenorhabditis elegans Intermediate Filament, B family member (ifb-1) (ifb-1) mRNA, complete cds. 11/11 None
F10C1.2b.2 ENSEMBL cdna:known chromosome:CEL140:II:5765578:5772036:1 gene:F10C1.2 11/11 None
F10C1.2b.1 ENSEMBL cdna:known chromosome:CEL140:II:5765583:5772103:1 gene:F10C1.2 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
173976 2 1 NM_062735 175020_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:5771542-5772204(+) 100.0 100.0
Public Domain and Genome References
Ensembl F10C1.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_495136 Intermediate Filament, B family member (ifb-1) [Caenorhabditis elegans] gb|AAA93407.1| Intermediate filament, b protein 1, isoform b [Caenorhabditis elegans] sp|Q19289|IFB1_CAEEL Intermediate filament protein ifb-1 (Intermediate filament protein B1) (IF-B1) (Cel IF B1) 0.0
blast NP_495137 Intermediate Filament, B family member (ifb-1) [Caenorhabditis elegans] gb|AAA93408.1| Intermediate filament, b protein 1, isoform a [Caenorhabditis elegans] 0.0
blast CAE59186 Hypothetical protein CBG02495 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001664 EMBL-EBI Intermediate filament protein 2.0E-15
Pfam IPR001664 EMBL-EBI Intermediate filament protein 1.9E-88
Pfam IPR001322 EMBL-EBI Intermediate filament, C-terminal 3.8E-76
Sequence
Target Sequence 
>C. ELEGANS:175020_AT
aatccggacaataagctctcattatttttaaacaactttttctcttttaaacaactcccc
aaaatcactcaagttctctagtttctgtccataattttcttattattcttgatgatagac
cttctcgacattttttctttaaattgattcattgaaactgcctaaaactgaccaaaatat
tgaattgatttgcttaagactcttcacttaaaatcgctaatctgaaattcattttaaaaa
acatcaaaaaaagaacaaaaacgtttgcaattcttttcataatacactgcttttcccgtt
c

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATCCGGACAATAAGCTCTCATTAT 498 167 110 Antisense
AACAACTCCCCAAAATCACTCAAGT 450 135 159 Antisense
AATCACTCAAGTTCTCTAGTTTCTG 528 171 172 Antisense
CTAGTTTCTGTCCATAATTTTCTTA 330 225 187 Antisense
ATTCTTGATGATAGACCTTCTCGAC 281 11 214 Antisense
GATAGACCTTCTCGACATTTTTTCT 700 423 223 Antisense
GAAACTGCCTAAAACTGACCAAAAT 606 355 263 Antisense
ATTGATTTGCTTAAGACTCTTCACT 537 5 293 Antisense
GACTCTTCACTTAAAATCGCTAATC 340 373 307 Antisense
AAACGTTTGCAATTCTTTTCATAAT 254 125 368 Antisense
TCATAATACACTGCTTTTCCCGTTC 674 617 386 Antisense
Sequence Source Affymetrix Proprietary Database