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[191608_s_at] Transcription regulation

Description F44E2.6 /REP_DB=WormBase Gene ID /WP=CE00184 /TR=SW:P34436 /GB=AAA28039.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=Transcription regulation
Cluster 6grp_highest_10_10 > 48      6grp_high1_10_10 > 74      4grp_highest_8_8 > 39      4grp_high_8_8 > 04      6grp_highest_nonorm > 73      6grp_total > 64      4grp_total > 04      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 552
1 2 3 4 range
A 406.8
(-0.3)
P 		342.3
(-1.6)
P 		271.2
(-3)
P 		574.6
(3)
P 		303
B 541.8
(1.5)
P 		374
(-2.3)
P 		345.5
(-3)
P 		605.8
(3)
P 		260
C 369.9
(-2.2)
P 		295.6
(-3)
P 		356.7
(-2.3)
P 		823.6
(3)
P 		528
avr 439.5
(-1) 		337.3
(-2.8) 		324.5
(-3) 		668
(3) 		344

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 307
1 2 3 4 5 6 range
A 454.6
(-2.8)
P 		475.2
(-2.4)
P 		672
(1.9)
P 		724.3
(3)
P 		446.1
(-3)
P 		644.5
(1.3)
P 		278
B 510.1
(-1.8)
P 		474.9
(-3)
P 		649.9
(3)
P 		616.7
(1.9)
P 		587.6
(0.9)
P 		545.9
(-0.6)
P 		175
C 425.9
(-3)
P 		557.7
(-0.4)
P 		561.1
(-0.4)
P 		522.3
(-1.1)
P 		571
(-0.2)
P 		733.3
(3)
P 		307
avr 463.5
(-3) 		502.6
(-1.7) 		627.7
(2.5) 		621.1
(2.3) 		534.9
(-0.6) 		641.2
(3) 		178
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 102
1 2 3 4 range
A 148.1
(3)
P 		74.3
(-2.7)
P 		70.9
(-3)
P 		84.1
(-2)
P 		77
B 172.8
(3)
P 		92.4
(-2.2)
P 		80.1
(-3)
P 		129.1
(0.2)
P 		93
C 122.4
(1.2)
P 		85
(-3)
P 		124.3
(1.4)
P 		138.9
(3)
P 		54
avr 147.8
(3) 		83.9
(-3) 		91.8
(-2.3) 		117.4
(0.1) 		64

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 162
1 2 3 4 5 6 range
A 83.8
(-3)
P 		169
(2.1)
P 		146.3
(0.8)
P 		183.7
(3)
P 		134.6
(0.1)
P 		156.9
(1.4)
P 		100
B 177.5
(-1.5)
P 		158.1
(-3)
P 		157.8
(-3)
P 		163.3
(-2.6)
P 		238.8
(3)
P 		203.5
(0.4)
P 		81
C 157.9
(-0.7)
P 		170.2
(-0.2)
P 		142.8
(-1.4)
P 		105
(-3)
P 		184.8
(0.4)
P 		245.5
(3)
P 		141
avr 139.7
(-3) 		165.8
(-0.5) 		149
(-2.1) 		150.7
(-1.9) 		186.1
(1.5) 		202
(3) 		62
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 191608_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7818
Sequence Type Exemplar sequence
Representative Public ID F44E2.6 NCBI
Target Description F44E2.6 /REP_DB=WormBase Gene ID /WP=CE00184 /TR=SW:P34436 /GB=AAA28039.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=Transcription regulation
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_066553(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066553 NCBI Caenorhabditis elegans F44E2.6 (F44E2.6) mRNA, complete cds. 11/11 None
SNAP00000040001 ENSEMBL cdna:SNAP chromosome:CEL140:III:8844479:8845077:-1 11/11 None
GENEFINDER00000040014 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:8844479:8845056:-1 11/11 None
F44E2.6 ENSEMBL cdna:known chromosome:CEL140:III:8844474:8845087:-1 gene:F44E2.6 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
chrIII:8844474-8845073(-) 100.0 100.0
Public Domain and Genome References
Gene Title Transcription regulation
Ensembl F44E2.6
Entrez Gene 176244 Entrez gene
SwissProt P34436 EMBL-EBI
WormBase CE00184 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1587579_AT similar to Methionine-R-sulfoxide reductase B cfa
CANINE_2:CFA.10136.2.S1_A_AT similar to Methionine-R-sulfoxide reductase B cfa
CANINE_2:CFAAFFX.7234.1.S1_S_AT similar to Methionine-R-sulfoxide reductase B cfa
HU35KSUBA:C02099_S_AT methionine sulfoxide reductase B2 hs
HG-U133_PLUS_2:219451_AT methionine sulfoxide reductase B2 hs
HG-U133A:219451_AT methionine sulfoxide reductase B2 hs
HG-U133A_2:219451_AT methionine sulfoxide reductase B2 hs
HG-U133_PLUS_2:218773_S_AT methionine sulfoxide reductase B2 hs
HG-U133A:218773_S_AT methionine sulfoxide reductase B2 hs
HG-FOCUS:218773_S_AT methionine sulfoxide reductase B2 hs
HG-U133A_2:218773_S_AT methionine sulfoxide reductase B2 hs
HU35KSUBB:RC_R49920_AT methionine sulfoxide reductase B2 hs
HU35KSUBC:RC_AA151574_AT methionine sulfoxide reductase B2 hs
U133_X3P:G7706344_3P_AT methionine sulfoxide reductase B2 hs
U133_X3P:G6912591_3P_S_AT methionine sulfoxide reductase B2 hs
HG-U95B:43370_AT methionine sulfoxide reductase B2 hs
HG-U95B:56432_AT methionine sulfoxide reductase B2 hs
MOUSE430_2:1424433_AT methionine sulfoxide reductase B2 mm
MOE430A:1424433_AT methionine sulfoxide reductase B2 mm
MOUSE430A_2:1424433_AT methionine sulfoxide reductase B2 mm
MG-U74BV2:111445_AT methionine sulfoxide reductase B2 mm
MU19KSUBA:TC24594_AT Methionine sulfoxide reductase B2 (Msrb2), mRNA mm
MU19KSUBC:TC41780_AT Methionine sulfoxide reductase B2 (Msrb2), mRNA mm
RG-U34C:RC_AI145832_AT methionine sulfoxide reductase B (predicted) rn
RAE230A:1372828_AT methionine sulfoxide reductase B (predicted) rn
RAT230_2:1372828_AT methionine sulfoxide reductase B (predicted) rn
Protein Similarities
Method ID Description E-Value
blast AAA28039 Hypothetical protein F44E2.6 [Caenorhabditis elegans] ref|NP_498954.1| F44E2.6 [Caenorhabditis elegans] sp|P34436|YL56_CAEEL Hypothetical protein F44E2.6 in chromosome III 1.0E-89
blast AAA28039 Hypothetical protein F44E2.6 [Caenorhabditis elegans] ref|NP_498954.1| F44E2.6 [Caenorhabditis elegans] sp|P34436|YL56_CAEEL Hypothetical protein F44E2.6 in chromosome III 2.0E-85
blast CAE62744 Hypothetical protein CBG06907 [Caenorhabditis briggsae] emb|CAE62743.1| Hypothetical protein CBG06906 [Caenorhabditis briggsae] 2.0E-70
blast CAE62744 Hypothetical protein CBG06907 [Caenorhabditis briggsae] emb|CAE62743.1| Hypothetical protein CBG06906 [Caenorhabditis briggsae] 2.0E-67
blast NP_902882 transcriptional regulator [Chromobacterium violaceum ATCC 12472] gb|AAQ60878.1| transcriptional regulator [Chromobacterium violaceum ATCC 12472] 6.0E-38
Protein Domains
Database ID Description E-Value
Pfam IPR002579 EMBL-EBI Protein of unknown function DUF25 9.0E-88
Pfam IPR002579 EMBL-EBI Protein of unknown function DUF25 9.0E-88
Sequence
Target Sequence 
>C. ELEGANS:191608_S_AT
gaagtttacagagttgccagagaatcaggaaccgagactccacacactggcggattcaat
gaccactttgaaaagggacgatatgtatgtttgtgttgtggctcagaacttttcaattcc
gacgccaaattctgggcagggtgtggctggccagcattctcggaatccgtgggacaagat
gcgaatattgtaagaattgtggacagatcacacggaatgcatcggacggaggttcgatgt
aaaacgtgtgatgcccacctcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGTTTACAGAGTTGCCAGAGAAT 44 337 121 Antisense
GAATCAGGAACCGAGACTCCACACA 473 327 142 Antisense
ACTCCACACACTGGCGGATTCAATG 32 99 157 Antisense
ACTGGCGGATTCAATGACCACTTTG 253 97 166 Antisense
TTGTGTTGTGGCTCAGAACTTTTCA 329 705 211 Antisense
TTCCGACGCCAAATTCTGGGCAGGG 77 699 237 Antisense
TTCTGGGCAGGGTGTGGCTGGCCAG 45 691 250 Antisense
GCCAGCATTCTCGGAATCCGTGGGA 485 279 270 Antisense
GGACAGATCACACGGAATGCATCGG 703 525 321 Antisense
ACGGAATGCATCGGACGGAGGTTCG 621 95 332 Antisense
TGTAAAACGTGTGATGCCCACCTCG 546 557 358 Antisense
Sequence Source Affymetrix Proprietary Database