[Home] | [Total List]

[173992_at] actin

Description CE14F4 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=T04C12.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=M89051 /WB_GENE_ID=T04C12.4 /WP=CE13148 /CHR=5 /FEA=Genomic Cluster /GEN=act-3 /DEF=actin; CEL14F4 Chris Martin sorted cDNA library Caenorhabditis elegans cDNA clone cm14f4 5prime similar to actin - C. elegans, mRNA sequence.
Cluster 6grp_highest_10_10 > 04      6grp_high1_10_10 > 31      4grp_highest_8_8 > 17      4grp_high_8_8 > 60      6grp_highest_nonorm > 17      6grp_total > 42      4grp_total > 59      6grp_cgc > 80      6grp_high1_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11259
1 2 3 4 range
A 10919.5
(0.9)
P 		11126.1
(1)
P 		14639.3
(3)
P 		4008.9
(-3)
P 		10630
B 10507.4
(0.3)
P 		14476.6
(2.5)
P 		15268.1
(3)
P 		4849.2
(-3)
P 		10419
C 10127.4
(1.1)
P 		12974.7
(3)
P 		12624.1
(2.8)
P 		4008.7
(-3)
P 		8966
avr 10518.1
(0.8) 		12859.1
(2.2) 		14177.2
(3) 		4288.9
(-3) 		9888

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 8686
1 2 3 4 5 6 range
A 11049.8
(-1.4)
P 		11434.1
(-0.9)
P 		14453.9
(3)
P 		9847.8
(-3)
P 		11689
(-0.6)
P 		10538.3
(-2.1)
P 		4606
B 12183.3
(-0.9)
P 		12159.3
(-0.9)
P 		17469.9
(3)
P 		11952.9
(-1)
P 		10805.3
(-1.9)
P 		9236
(-3)
P 		8234
C 14793.4
(3)
P 		11314.4
(-0.5)
P 		11189.5
(-0.6)
P 		13262.2
(1.5)
P 		12852
(1.1)
P 		8784.2
(-3)
P 		6009
avr 12675.5
(0.9) 		11635.9
(-0.4) 		14371.1
(3) 		11687.6
(-0.3) 		11782.1
(-0.2) 		9519.5
(-3) 		4852
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3813
1 2 3 4 range
A 3975.8
(3)
P 		2415.2
(0.2)
P 		3827
(2.7)
P 		586.8
(-3)
P 		3389
B 3350.7
(2.5)
P 		3575.4
(3)
P 		3538
(2.9)
P 		1033.4
(-3)
P 		2542
C 3352.5
(1.3)
P 		3730.3
(1.9)
P 		4399.9
(3)
P 		675.9
(-3)
P 		3724
avr 3559.7
(2.3) 		3240.3
(1.7) 		3921.6
(3) 		765.4
(-3) 		3156

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3446
1 2 3 4 5 6 range
A 2036.9
(-3)
P 		4066.5
(3)
P 		3147.8
(0.3)
P 		2497.6
(-1.6)
P 		3527.2
(1.4)
P 		2565.7
(-1.4)
P 		2030
B 4239.2
(2.3)
P 		4047.3
(1.3)
P 		4242.2
(2.3)
P 		3165.9
(-3)
P 		4390
(3)
P 		3444.1
(-1.6)
P 		1224
C 5483.3
(3)
P 		3452.4
(-1.3)
P 		2847.9
(-2.6)
P 		2667
(-3)
P 		4158.7
(0.2)
P 		2940.6
(-2.4)
P 		2816
avr 3919.8
(2.5) 		3855.4
(2.2) 		3412.6
(0.1) 		2776.8
(-3) 		4025.3
(3) 		2983.5
(-2) 		1249
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173992_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.25562
Sequence Type Exemplar sequence
Representative Public ID CE14F4 NCBI
Target Description CE14F4 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=T04C12.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=M89051 /WB_GENE_ID=T04C12.4 /WP=CE13148 /CHR=5 /FEA=Genomic Cluster /GEN=act-3 /DEF=actin; CEL14F4 Chris Martin sorted cDNA library Caenorhabditis elegans cDNA clone cm14f4 5prime similar to actin - C. elegans, mRNA sequence.
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_073416(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073416 NCBI Caenorhabditis elegans T04C12.4 (actin) mRNA, complete cds. 11/11 None
T04C12.4.5 ENSEMBL cdna:known chromosome:CEL140:V:11074084:11077082:-1 gene:T04C12.4 11/11 A 
T04C12.4.6 ENSEMBL cdna:known chromosome:CEL140:V:11074084:11076048:-1 gene:T04C12.4 11/11 A 
T04C12.4.4 ENSEMBL cdna:known chromosome:CEL140:V:11074084:11075857:-1 gene:T04C12.4 11/11 A 
T04C12.4.1 ENSEMBL cdna:known chromosome:CEL140:V:11074084:11075852:-1 gene:T04C12.4 11/11 A 
T04C12.4.2 ENSEMBL cdna:known chromosome:CEL140:V:11074084:11077086:-1 gene:T04C12.4 11/11 A 
T04C12.4.3 ENSEMBL cdna:known chromosome:CEL140:V:11074086:11075852:-1 gene:T04C12.4 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
chrV:11083659-11084891(+) 81.5 81.5
chrV:11074342-11075832(-) 100.0 100.0
chrV:11079521-11080715(-) 76.31 76.31
Public Domain and Genome References
Gene Title actin
Gene Symbol act-3
Ensembl T04C12.4
Entrez Gene 179533 Entrez gene
SwissProt P10983 EMBL-EBI
WormBase CE13148 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:250458_S_AT actin 7 (ACT7) / actin 2 at
CANINE:1603908_X_AT similar to cytoplasmic beta-actin cfa
CANINE:1582872_X_AT similar to cytoplasmic beta-actin cfa
CANINE_2:CFAAFFX.15835.1.S1_AT similar to cytoplasmic beta-actin cfa
CANINE_2:CFAAFFX.23258.1.S1_X_AT similar to cytoplasmic beta-actin cfa
CANINE_2:CFAAFFX.23260.1.S1_X_AT similar to cytoplasmic beta-actin cfa
DROSOPHILA_2:1626163_S_AT Actin 5C dm
DROSGENOME1:143058_F_AT Actin 5C dm
CHICKEN:GGA.4737.1.S1_AT actin, cytoplasmic, type 5 gga
CHICKEN:GGA.4520.1.S1_S_AT Actin, cytoplasmic, type 5 gga
HG-U133_PLUS_2:210926_AT actin-like protein hs
HG-U133A:210926_AT actin-like protein hs
HG-U133A_2:210926_AT actin-like protein hs
U133_X3P:G12408251_3P_X_AT actin-like protein hs
U133_X3P:G12408251_3P_S_AT actin-like protein hs
U133_X3P:G12408251_3P_AT actin-like protein hs
U133_X3P:210926_3P_AT actin-like protein hs
MG-U74AV2:96573_AT actin, gamma, cytoplasmic 1 mm
MOUSE430_2:1415779_S_AT actin, gamma, cytoplasmic 1 mm
MOUSE430A_2:1415779_S_AT actin, gamma, cytoplasmic 1 mm
MOE430A:1415779_S_AT actin, gamma, cytoplasmic 1 mm
MU11KSUBA:M21495_F_AT actin, gamma, cytoplasmic 1 mm
MU11KSUBB:MSA.42673.0_F_AT actin, gamma, cytoplasmic 1 mm
MU11KSUBB:MSA.12411.0_F_AT actin, gamma, cytoplasmic 1 mm
MU11KSUBB:MSA.401.0_F_AT actin, gamma, cytoplasmic 1 mm
MU19KSUBC:TC39202_F_AT Actin, gamma, cytoplasmic 1, mRNA (cDNA clone MGC:30279 IMAGE:3499390) mm
RG-U34A:RC_AA900769_S_AT actin, gamma, cytoplasmic (predicted) rn
RG-U34A:X52815CDS_F_AT actin, gamma, cytoplasmic (predicted) rn
RG-U34B:RC_AA964496_S_AT actin, gamma, cytoplasmic (predicted) rn
RG-U34C:RC_AI104357_AT actin, gamma, cytoplasmic (predicted) rn
RAE230A:1371327_A_AT actin, gamma, cytoplasmic (predicted) rn
RAT230_2:1371327_A_AT actin, gamma, cytoplasmic (predicted) rn
RAE230B:1384581_AT actin, gamma, cytoplasmic (predicted) rn
RAT230_2:1384581_AT actin, gamma, cytoplasmic (predicted) rn
YEAST_2:1769719_AT Actin, structural protein involved in cell polarization, endocytosis, and other cytoskeletal functions Sc
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5884 actin filament inferred from electronic annotation QuickGO AmiGO
15629 actin cytoskeleton inferred from electronic annotation QuickGO AmiGO
5856 cytoskeleton inferred from sequence similarity QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3774 motor activity inferred from electronic annotation QuickGO AmiGO
5200 structural constituent of cytoskeleton inferred from electronic annotation QuickGO AmiGO
5200 structural constituent of cytoskeleton inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB04678 Hypothetical protein T04C12.6 [Caenorhabditis elegans] emb|CAB04676.1| Hypothetical protein T04C12.4 [Caenorhabditis elegans] ref|NP_505819.1| T04C12.6 [Caenorhabditis elegans] ref|NP_505817.1| T04C12.4 [Caenorhabditis elegans] sp|P10983|ACT1_CAEEL Actin-1/3 emb|CAA34717.1| actin [Caenorhabditis elegans] 0.0
blast AAR21857 actin [Cooperia oncophora] gb|AAB04575.1| Actin protein 4, isoform a [Caenorhabditis elegans] emb|CAA34720.1| actin [Caenorhabditis elegans] ref|NP_508841.1| ACTin family member (act-4) [Caenorhabditis elegans] gb|AAY52453.1| actin [Caenorhabditis remanei] sp|P10986|ACT4_CAEEL Actin-4 emb|CAE68670.1| Hypothetical protein CBG14574 [Caenorhabditis briggsae] emb|CAE75153.1| Hypothetical protein CBG23090 [Caenorhabditis briggsae] 0.0
blast 1D4X Chain , Crystal Structure Of Caenorhabditis Elegans Mg-Atp Actin Complexed With Human Gelsolin Segment 1 At 1.75 A Resolution 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004000 EMBL-EBI Actin/actin-like 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:173992_AT
cgcaagtgcttctaagctcttcgccttaccattttctcttttctttcttttttctataca
tttttttccaattgtcaccaaatcgttatggtcccttttggggcaataacaaattctatc
atcatttcacgatcatgagaccattcaaaaagaccatcaagattttatttccgatcctgc
cacataagaagaccccactacaatttgctctgttctttgttttgtgcatat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGCAAGTGCTTCTAAGCTCTTCGCC 668 253 1130 Antisense
TTTTTCCAATTGTCACCAAATCGTT 555 673 1192 Antisense
TCGTTATGGTCCCTTTTGGGGCAAT 352 601 1212 Antisense
AATTCTATCATCATTTCACGATCAT 227 177 1241 Antisense
ATTTCACGATCATGAGACCATTCAA 149 15 1253 Antisense
GAGACCATTCAAAAAGACCATCAAG 459 393 1266 Antisense
CAAGATTTTATTTCCGATCCTGCCA 536 183 1287 Antisense
GATCCTGCCACATAAGAAGACCCCA 128 417 1302 Antisense
TAAGAAGACCCCACTACAATTTGCT 134 421 1314 Antisense
CCCACTACAATTTGCTCTGTTCTTT 146 259 1323 Antisense
GCTCTGTTCTTTGTTTTGTGCATAT 358 299 1336 Antisense
Sequence Source Affymetrix Proprietary Database