[Home] | [Total List]

[188952_at] LIM protein

Description F33D11.1 /REP_DB=WormBase Gene ID /WP=CE09891 /TR=O44778 /GB=AAB96695.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=LIM protein
Cluster 6grp_total > 68      4grp_total > 11      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 157
1 2 3 4 range
A 34.3
(-2.2)
A 		26.9
(-2.5)
A 		13.9
(-3)
A 		162.8
(3)
A 		149
B 15.7
(-2.3)
A 		60.6
(3)
A 		19.1
(-1.9)
A 		9.7
(-3)
A 		51
C 42.9
(0.1)
A 		8.3
(-2.8)
A 		6.1
(-3)
A 		76.5
(3)
A 		70
avr 31
(-1.5) 		31.9
(-1.4) 		13
(-3) 		83
(3) 		70

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 79
1 2 3 4 5 6 range
A 45.8
(1.2)
A 		14.4
(-3)
A 		38.6
(0.3)
P 		37.7
(0.1)
A 		59
(3)
A 		37.7
(0.1)
A 		45
B 25.1
(-1.4)
P 		13.4
(-3)
A 		18.1
(-2.4)
A 		15.3
(-2.7)
A 		39.4
(0.6)
P 		57.3
(3)
P 		44
C 44
(-1.3)
A 		40.1
(-1.6)
P 		49.3
(-0.8)
A 		39
(-1.7)
A 		24.5
(-3)
A 		92.6
(3)
P 		68
avr 38.3
(-0.6) 		22.6
(-3) 		35.3
(-1.1) 		30.7
(-1.8) 		41
(-0.2) 		62.5
(3) 		40
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 22
1 2 3 4 range
A 12.5
(-0.4)
A 		5.8
(-2.3)
A 		3.6
(-3)
A 		23.8
(3)
A 		20
B 5
(-1.7)
A 		15
(3)
A 		4.4
(-1.9)
A 		2.1
(-3)
A 		13
C 14.2
(3)
A 		2.4
(-2.9)
A 		2.1
(-3)
A 		12.9
(2.4)
A 		12
avr 10.6
(1.5) 		7.7
(-0.3) 		3.4
(-3) 		12.9
(3) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 27
1 2 3 4 5 6 range
A 8.4
(-1.4)
A 		5.1
(-3)
A 		8.4
(-1.4)
P 		9.6
(-0.9)
A 		17.8
(3)
A 		9.2
(-1.1)
A 		13
B 8.7
(-1.4)
P 		4.5
(-2.8)
A 		4.4
(-2.9)
A 		4
(-3)
A 		16
(1.1)
P 		21.4
(3)
P 		17
C 16.3
(-0.8)
A 		12.2
(-1.9)
P 		12.6
(-1.8)
A 		7.8
(-3)
A 		7.9
(-3)
A 		31
(3)
P 		23
avr 11.1
(-1.2) 		7.3
(-2.9) 		8.5
(-2.4) 		7.1
(-3) 		13.9
(0) 		20.5
(3) 		13
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188952_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1262
Sequence Type Exemplar sequence
Representative Public ID F33D11.1 NCBI
Target Description F33D11.1 /REP_DB=WormBase Gene ID /WP=CE09891 /TR=O44778 /GB=AAB96695.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=LIM protein
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_059297(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059297 NCBI Caenorhabditis elegans F33D11.1 (F33D11.1) mRNA, complete cds. 11/11 None
SNAP00000028956 ENSEMBL cdna:SNAP chromosome:CEL140:I:5860181:5861010:1 11/11 None
GENEFINDER00000028963 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:5860181:5861010:1 11/11 None
F33D11.1 ENSEMBL cdna:known chromosome:CEL140:I:5860181:5861010:1 gene:F33D11.1 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
chrI:5860180-5861010(+) 100.0 100.0
Public Domain and Genome References
Gene Title LIM protein
Ensembl F33D11.1
Entrez Gene 185224 Entrez gene
SwissProt O44778 EMBL-EBI
WormBase CE09891 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6118 electron transport inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5489 electron transporter activity inferred from electronic annotation QuickGO AmiGO
20037 heme binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB96695 Hypothetical protein F33D11.1 [Caenorhabditis elegans] ref|NP_491698.1| F33D11.1 [Caenorhabditis elegans] 2.0E-80
blast AAB97536 Hypothetical protein C34B2.4 [Caenorhabditis elegans] ref|NP_492793.1| C34B2.4 [Caenorhabditis elegans] 5.0E-77
blast CAE67326 Hypothetical protein CBG12788 [Caenorhabditis briggsae] 1.0E-74
Protein Domains
Database ID Description E-Value
Pfam IPR001781 EMBL-EBI Zn-binding protein, LIM 8.0E-8
Pfam IPR001781 EMBL-EBI Zn-binding protein, LIM 2.3E-9
Sequence
Target Sequence 
>C. ELEGANS:188952_AT
aatgtgggcattgttcggtgaaagttggcgaggagtcggctattctgactaatggaaaag
tctggcacgtaaaccatctgctgtgcgacttgtgcaactgccgtatcaatgacggggaga
gatgtgttccacagaatggagtgatcctgtgctccgagtgccatattaagacgactcgtc
ccatttgtaaaggttgtggcgagttcatcaagaccaacttgtgtgaggcgttgaattcta
cgtggcatcccacttgcttccaatgttctgtgtgccagaagccattagaagtagattttc
atcaacttccgaatcgaatgtgtgttcattccgattgtttctgggat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATGTGGGCATTGTTCGGTGAAAGT 539 161 20 Antisense
GAGTCGGCTATTCTGACTAATGGAA 153 401 52 Antisense
AAAGTCTGGCACGTAAACCATCTGC 591 121 76 Antisense
GTAAACCATCTGCTGTGCGACTTGT 481 461 88 Antisense
TCTGCTGTGCGACTTGTGCAACTGC 381 597 96 Antisense
GACTTGTGCAACTGCCGTATCAATG 460 371 106 Antisense
GACGACTCGTCCCATTTGTAAAGGT 459 379 189 Antisense
AAGACCAACTTGTGTGAGGCGTTGA 293 153 229 Antisense
GGCGTTGAATTCTACGTGGCATCCC 183 541 246 Antisense
ATGTGTGTTCATTCCGATTGTTTCT 649 49 337 Antisense
TGTTCATTCCGATTGTTTCTGGGAT 136 561 342 Antisense
Sequence Source Affymetrix Proprietary Database