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[171860_x_at] myosin

Description CEC7843_rc /REP_DB=TREMBL Accession /GB=C10784 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk153f2 : 3prime end, single read.
Cluster 6grp_total > 57      4grp_total > 0      6grp_cgc > 27      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 141
1 2 3 4 range
A 116.4
(-2.5)
P 		103.8
(-3)
A 		126.5
(-2)
A 		244.4
(3)
A 		141
B 152.7
(1.5)
P 		167.2
(3)
P 		146.5
(0.8)
A 		110.5
(-3)
A 		57
C 174
(2.4)
P 		119.3
(-3)
A 		170.5
(2.1)
P 		179.6
(3)
M 		60
avr 147.7
(-0.8) 		130.1
(-3) 		147.8
(-0.8) 		178.2
(3) 		48

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 120
1 2 3 4 5 6 range
A 142
(-3)
A 		161
(-0.8)
P 		142.1
(-3)
P 		143.2
(-2.9)
A 		150
(-2.1)
A 		193.1
(3)
P 		51
B 146.7
(-0)
P 		163.2
(0.8)
P 		182.5
(1.8)
A 		87.2
(-3)
P 		89.5
(-2.9)
A 		207.2
(3)
P 		120
C 164.5
(2)
P 		128.5
(-0.7)
P 		98.8
(-3)
M 		127.9
(-0.8)
A 		121.5
(-1.3)
M 		177.9
(3)
M 		79
avr 151.1
(-0.4) 		150.9
(-0.4) 		141.1
(-1.2) 		119.4
(-3) 		120.3
(-2.9) 		192.7
(3) 		73
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 37
1 2 3 4 range
A 42.4
(3)
P 		22.5
(-3)
A 		33.1
(0.2)
A 		35.8
(1)
A 		20
B 48.7
(3)
P 		41.3
(1.2)
P 		34
(-0.5)
A 		23.5
(-3)
A 		25
C 57.6
(2.6)
P 		34.3
(-2.2)
A 		59.4
(3)
P 		30.3
(-3)
M 		29
avr 49.6
(3) 		32.7
(-2.1) 		42.2
(0.7) 		29.9
(-3) 		20

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 54
1 2 3 4 5 6 range
A 26.2
(-3)
A 		57.3
(3)
P 		30.9
(-2.1)
P 		36.3
(-1.1)
A 		45.3
(0.7)
A 		47
(1)
P 		31
B 51
(0.1)
P 		54.3
(0.5)
P 		44.3
(-0.7)
A 		23.1
(-3)
P 		36.4
(-1.5)
A 		77.3
(3)
P 		54
C 61
(3)
P 		39.2
(-0.6)
P 		25.1
(-3)
M 		25.7
(-2.9)
A 		39.3
(-0.6)
M 		59.5
(2.7)
M 		36
avr 46.1
(0.2) 		50.3
(1) 		33.4
(-2.1) 		28.4
(-3) 		40.3
(-0.8) 		61.3
(3) 		33
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171860_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27857
Sequence Type Exemplar sequence
Representative Public ID CEC7843 NCBI
Target Description CEC7843_rc /REP_DB=TREMBL Accession /GB=C10784 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk153f2 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_059992
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
SNAP00000040558 ENSEMBL cdna:SNAP chromosome:CEL140:I:8854146:8859219:-1 None
GENEFINDER00000040560 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:8854146:8859219:-1 None
F29D10.4 ENSEMBL cdna:known chromosome:CEL140:I:8853931:8859219:-1 gene:F29D10.4 A 
NM_059992 NCBI Caenorhabditis elegans F29D10.4 (myosin) mRNA, complete cds. 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
chrI:8853927-8854264(-) 89.07 89.07
Public Domain and Genome References
Gene Title myosin
Gene Symbol hum-1
Ensembl F29D10.4
Entrez Gene 172698 Entrez gene
SwissProt Q19901 EMBL-EBI
WormBase CE05763 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1605741_AT similar to myosin IE cfa
CANINE_2:CFA.19780.1.S1_S_AT similar to myosin IE cfa
CANINE_2:CFAAFFX.25468.1.S1_AT similar to myosin IE cfa
CANINE_2:CFAAFFX.25468.1.S1_S_AT similar to myosin IE cfa
HUGENEFL:U14391_AT myosin IE hs
HG-U133A:203072_AT myosin IE hs
HG-U133_PLUS_2:203072_AT myosin IE hs
HG-FOCUS:203072_AT myosin IE hs
HG-U133A_2:203072_AT myosin IE hs
U133_X3P:G4826843_3P_AT myosin IE hs
HG-U95AV2:37631_AT myosin IE hs
HG-U95D:74646_AT myosin IE hs
HG-U133_PLUS_2:232471_AT Myosin IE hs
HG-U133B:232471_AT Myosin IE hs
HG-U133_PLUS_2:215408_AT Myosin IE hs
HG-U133A_2:215408_AT Myosin IE hs
HG-U133A:215408_AT Myosin IE hs
U133_X3P:HS2.373427.1.S1_3P_AT Myosin IE hs
U133_X3P:HS.306759.0.S1_3P_AT Myosin IE hs
U133_X3P:HS.287468.0.S1_3P_AT Myosin IE hs
HG-U133_PLUS_2:1556623_AT Myosin IE hs
HG-U133_PLUS_2:215405_AT Myosin IE hs
HG-U133A_2:215405_AT Myosin IE hs
HG-U133A:215405_AT Myosin IE hs
HG-U133_PLUS_2:237136_AT Myosin IE hs
HG-U133B:237136_AT Myosin IE hs
HG-U133_PLUS_2:241493_AT Myosin IE hs
HG-U133B:241493_AT Myosin IE hs
HG-U95E:72249_AT Myosin IE hs
HG-U95D:73942_AT Myosin IE hs
HG-U95D:77032_AT Myosin IE hs
U133_X3P:HS.224142.0.A1_3P_AT Myosin IE hs
U133_X3P:HS.252813.0.A1_3P_AT Myosin IE hs
RG-U34A:RC_AA955302_AT myosin IE rn
RG-U34A:RC_AI175935_AT myosin IE rn
RG-U34A:RC_AI059137_AT myosin IE rn
RAE230A:1370933_AT myosin IE rn
RAT230_2:1370933_AT myosin IE rn
YEAST_2:1774876_AT One of two type I myosins; contains proline-rich tail homology 2 (TH2) and SH3 domains; MYO5 deletion has little effect on growth, but myo3 myo5 double deletion causes severe defects in growth and actin cytoskeleton organization Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6508 proteolysis inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16459 myosin inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3774 motor activity inferred from electronic annotation QuickGO AmiGO
4197 cysteine-type endopeptidase activity inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB00095 Hypothetical protein F29D10.4 [Caenorhabditis elegans] ref|NP_492393.1| F29D10.4 [Caenorhabditis elegans] 0.0
blast CAE66984 Hypothetical protein CBG12380 [Caenorhabditis briggsae] 0.0
blast AAA97925 hum-1 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001452 EMBL-EBI SH3 3.2E-17
Pfam IPR001609 EMBL-EBI Myosin head (motor domain) 1.0E-126
Pfam IPR010926 EMBL-EBI Myosin tail 2 2.4E-72
Sequence
Target Sequence 
>C. ELEGANS:171860_X_AT
gatgcttctgggtggtggcaagggaaagtgaacaatcgagttggtcttttgccccggaaa
ttatgtcacagaataatttcannnnnnattgcacgatctnnnnntcatttccccaatatc
tgtgaaatgcctgtttgtgaacattgattacgagttgtnctatanatcgttaaatatttt
atattagcatcccgg

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGCTTCTGGGTGGTGGCAAGGGA 51 413 90 Antisense
GCTTCTGGGTGGTGGCAAGGGAAAG 645 303 93 Antisense
GGGTGGTGGCAAGGGAAAGTGAACA 549 495 99 Antisense
GAACAATCGAGTTGGTCTTTTGCCC 335 353 119 Antisense
GTCTTTTGCCCCGGAAATTATGTCA 708 461 133 Antisense
TTGCCCCGGAAATTATGTCACAGAA 188 701 138 Antisense
TCCCCAATATCTGTGAAATGCCTGT 185 597 199 Antisense
ATATCTGTGAAATGCCTGTTTGTGA 329 21 205 Antisense
GAAATGCCTGTTTGTGAACATTGAT 679 361 213 Antisense
GTTTGTGAACATTGATTACGAGTTG 243 451 222 Antisense
TAAATATTTTATATTAGCATCCCGG 168 641 260 Antisense
Sequence Source Affymetrix Proprietary Database