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[183976_at]

Description Y56A3A.1 /REP_DB=WormBase Gene ID /WP=CE22572 /TR=Q9U233 /GB=CAB60507.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 56      4grp_total > 14      6grp_cgc > 27      6grp_cgc_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 65
1 2 3 4 range
A 38.3
(-0.2)
A 		8.1
(-3)
A 		23.3
(-1.6)
A 		72
(3)
A 		64
B 31.1
(3)
A 		9.7
(-2.3)
A 		6.7
(-3)
A 		16.4
(-0.6)
A 		24
C 10.3
(-3)
A 		12.1
(-1.7)
A 		10.3
(-3)
A 		18.3
(3)
A 		8
avr 26.6
(0.9) 		10
(-3) 		13.4
(-2.2) 		35.6
(3) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 11
1 2 3 4 5 6 range
A 13.3
(3)
A 		6.5
(-2.5)
A 		12.9
(2.7)
A 		7.5
(-1.7)
A 		5.9
(-3)
A 		8.5
(-0.9)
A 		7
B 8.9
(-0.3)
A 		9.8
(0.3)
A 		4.7
(-3)
A 		6.2
(-2)
A 		8.4
(-0.6)
A 		14.1
(3)
A 		9
C 3.9
(-2.7)
A 		14.5
(2.9)
A 		8.1
(-0.5)
A 		3.3
(-3)
A 		6.7
(-1.2)
A 		14.7
(3)
A 		11
avr 8.7
(-0.3) 		10.3
(1.1) 		8.6
(-0.4) 		5.7
(-3) 		7
(-1.8) 		12.4
(3) 		7
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 13.9
(3)
A 		1.8
(-3)
A 		6.1
(-0.9)
A 		10.5
(1.3)
A 		12
B 9.9
(3)
A 		2.4
(-2.4)
A 		1.6
(-3)
A 		3.5
(-1.6)
A 		8
C 3.4
(0.6)
A 		3.5
(1.8)
A 		3.6
(3)
A 		3.1
(-3)
A 		1
avr 9.1
(3) 		2.6
(-3) 		3.8
(-1.9) 		5.7
(-0.1) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5
1 2 3 4 5 6 range
A 2.5
(1.2)
A 		2.3
(-0)
A 		2.8
(3)
A 		1.9
(-2.4)
A 		1.8
(-3)
A 		2.1
(-1.2)
A 		1
B 3.1
(-0.1)
A 		3.3
(0.1)
A 		1.1
(-3)
A 		1.7
(-2.1)
A 		3.4
(0.3)
A 		5.3
(3)
A 		4
C 1.4
(-2)
A 		4.4
(2.3)
A 		2.1
(-1)
A 		0.7
(-3)
A 		2.2
(-0.9)
A 		4.9
(3)
A 		4
avr 2.3
(-1) 		3.3
(1.2) 		2
(-1.7) 		1.4
(-3) 		2.5
(-0.6) 		4.1
(3) 		3
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183976_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6179
Sequence Type Exemplar sequence
Representative Public ID Y56A3A.1 NCBI
Target Description Y56A3A.1 /REP_DB=WormBase Gene ID /WP=CE22572 /TR=Q9U233 /GB=CAB60507.1 /SUBMIT=HINXTON /CHR=3 /FEA=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_067134(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067134 NCBI Caenorhabditis elegans NOT-Like (yeast CCR4/NOT complex component) family member (ntl-3) (ntl-3) mRNA, complete cds. 11/11 None
SNAP00000035187 ENSEMBL cdna:SNAP chromosome:CEL140:III:11836891:11847736:-1 10/11 None
GENEFINDER00000035238 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:11837355:11846337:-1 10/11 None
Y56A3A.1 ENSEMBL cdna:known chromosome:CEL140:III:11831345:11846337:-1 gene:Y56A3A.1 11/11 A 
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:11837350-11846333(-) 98.18 100.0
Public Domain and Genome References
Gene Title
Gene Symbol ntl-3
Ensembl Y56A3A.1
Entrez Gene 176614 Entrez gene
SwissProt Q9U233 EMBL-EBI
WormBase CE33892 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:250035_AT transcription regulator NOT2/NOT3/NOT5 family protein at
CANINE_2:CFAAFFX.4925.1.S1_S_AT similar to CCR4-NOT transcription complex, subunit 3 cfa
DROSOPHILA_2:1634881_AT dm
DROSGENOME1:153791_AT dm
HG-U95AV2:38310_AT CCR4-NOT transcription complex, subunit 3 hs
HG-U133_PLUS_2:211141_S_AT CCR4-NOT transcription complex, subunit 3 hs
HG-U133A:211141_S_AT CCR4-NOT transcription complex, subunit 3 hs
HG-U133A_2:211141_S_AT CCR4-NOT transcription complex, subunit 3 hs
HG-U133_PLUS_2:203239_S_AT CCR4-NOT transcription complex, subunit 3 hs
HG-U133A:203239_S_AT CCR4-NOT transcription complex, subunit 3 hs
HG-FOCUS:203239_S_AT CCR4-NOT transcription complex, subunit 3 hs
HG-U133A_2:203239_S_AT CCR4-NOT transcription complex, subunit 3 hs
HU35KSUBC:RC_W68171_AT CCR4-NOT transcription complex, subunit 3 hs
HU35KSUBC:RC_T79588_F_AT CCR4-NOT transcription complex, subunit 3 hs
HU35KSUBC:RC_N34048_F_AT CCR4-NOT transcription complex, subunit 3 hs
HU35KSUBD:RC_W31863_AT CCR4-NOT transcription complex, subunit 3 hs
U133_X3P:G7657386_3P_X_AT CCR4-NOT transcription complex, subunit 3 hs
U133_X3P:G7657386_3P_AT CCR4-NOT transcription complex, subunit 3 hs
U133_X3P:G7657386_3P_A_AT CCR4-NOT transcription complex, subunit 3 hs
U133_X3P:G6856204_3P_X_AT CCR4-NOT transcription complex, subunit 3 hs
U133_X3P:G6856204_3P_A_AT CCR4-NOT transcription complex, subunit 3 hs
U133_X3P:HS.108300.2.A1_3P_X_AT CCR4-NOT transcription complex, subunit 3 hs
U133_X3P:HS.108300.2.A1_3P_AT CCR4-NOT transcription complex, subunit 3 hs
U133_X3P:203239_3P_S_AT CCR4-NOT transcription complex, subunit 3 hs
HG-U133_PLUS_2:229143_AT CCR4-NOT transcription complex, subunit 3 hs
HG-U133B:229143_AT CCR4-NOT transcription complex, subunit 3 hs
HG-U95C:61905_AT CCR4-NOT transcription complex, subunit 3 hs
MOE430A:1435965_AT CCR4-NOT transcription complex, subunit 3 mm
MOUSE430A_2:1435965_AT CCR4-NOT transcription complex, subunit 3 mm
MOUSE430_2:1435965_AT CCR4-NOT transcription complex, subunit 3 mm
MG-U74AV2:102018_AT CCR4-NOT transcription complex, subunit 3 mm
MOE430B:1441465_AT CCR4-NOT transcription complex, subunit 3 mm
MOUSE430_2:1441465_AT CCR4-NOT transcription complex, subunit 3 mm
RAE230B:1385720_AT CCR4-NOT transcription complex, subunit 3 (predicted) rn
RAT230_2:1385720_AT CCR4-NOT transcription complex, subunit 3 (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
45449 regulation of transcription inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
30528 transcription regulator activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB60507 Hypothetical protein Y56A3A.1 [Caenorhabditis elegans] emb|CAD90172.1| Hypothetical protein Y56A3A.1 [Caenorhabditis elegans] ref|NP_499535.2| NOT-Like (yeast CCR4/NOT complex component) family member (ntl-3) [Caenorhabditis elegans] 0.0
blast CAE67726 Hypothetical protein CBG13301 [Caenorhabditis briggsae] 1.0E-176
blast CAE67726 Hypothetical protein CBG13301 [Caenorhabditis briggsae] 1.0E-166
blast T19385 hypothetical protein C18D11.5 - Caenorhabditis elegans 4.0E-96
Protein Domains
Database ID Description E-Value
Pfam IPR007207 EMBL-EBI Not CCR4-Not complex component, N-terminal 1.0E-126
Pfam IPR007282 EMBL-EBI NOT2/NOT3/NOT5 3.1E-43
Pfam IPR007207 EMBL-EBI Not CCR4-Not complex component, N-terminal 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:183976_AT
tggataggcctagaacaccgcctgtcacgcctgcatccgcagccccaccaccacccggga
taccgtacaattcagtggcagccggtcgaagtacaactacacccgtcccatcaactccga
tttcggcaaactcaccggccccgtcactggctcaggcggctcctatcgccgctgcttcac
cagtttttccgccggctgcagcagccgctagtaaaccagtgttggctcaatctgttagcg
agatgcctcaaaagaaggaaagtatcacctcaacgacgtctcgtggatctgcagcagcac
ctgccaccaccacaaccaccaccaccactacaacatcgtcagaaccagctgaagttcccc
tagttgtgcagcaaaccgtctcgga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGGATAGGCCTAGAACACCGCCTGT 437 545 995 Antisense
ATACCGTACAATTCAGTGGCAGCCG 239 23 1054 Antisense
GTGGCAGCCGGTCGAAGTACAACTA 612 491 1069 Antisense
CTCCGATTTCGGCAAACTCACCGGC 529 229 1109 Antisense
GCAGCCGCTAGTAAACCAGTGTTGG 135 313 1195 Antisense
GTGTTGGCTCAATCTGTTAGCGAGA 346 485 1213 Antisense
ATCACCTCAACGACGTCTCGTGGAT 266 29 1258 Antisense
TCTCGTGGATCTGCAGCAGCACCTG 595 611 1273 Antisense
CACCACTACAACATCGTCAGAACCA 150 203 1317 Antisense
AGAACCAGCTGAAGTTCCCCTAGTT 673 71 1335 Antisense
TAGTTGTGCAGCAAACCGTCTCGGA 497 651 1355 Antisense
Sequence Source Affymetrix Proprietary Database