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[189224_s_at] ankyrin domain

Description F42H11.2 /REP_DB=WormBase Gene ID /WP=CE10332 /TR=P90874 /GB=CAB03177.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=ankyrin domain
Cluster 6grp_highest_10_10 > 87      6grp_high1_10_10 > 77      4grp_highest_8_8 > 34      4grp_high_8_8 > 57      6grp_highest_nonorm > 92      6grp_total > 78      4grp_total > 62      6grp_highest_sub > Da      6grp_cgc > 49      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 88
1 2 3 4 range
A 187.3
(-0.5)
P 		169.9
(-1.8)
P 		232.9
(3)
P 		154.9
(-3)
P 		78
B 239.9
(3)
P 		168.8
(-1.8)
P 		186.9
(-0.6)
P 		151.9
(-3)
P 		88
C 231.2
(2.9)
P 		198.5
(0.2)
P 		232.9
(3)
P 		158.2
(-3)
P 		75
avr 219.5
(3) 		179.1
(-0.8) 		217.6
(2.8) 		155
(-3) 		65

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 573
1 2 3 4 5 6 range
A 171.3
(-2.9)
P 		174.8
(-2.8)
P 		159.8
(-3)
P 		175.9
(-2.8)
P 		245.5
(-2)
P 		693.5
(3)
P 		534
B 222
(-2)
P 		139.2
(-3)
P 		195.9
(-2.3)
P 		182.3
(-2.5)
P 		306.3
(-0.9)
P 		619.6
(3)
P 		480
C 230.9
(-1.8)
P 		153.5
(-2.6)
P 		165.9
(-2.5)
P 		120.8
(-3)
P 		312
(-0.9)
P 		675.9
(3)
P 		555
avr 208.1
(-2.4) 		155.8
(-3) 		173.9
(-2.8) 		159.7
(-3) 		287.9
(-1.4) 		663
(3) 		507
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 59
1 2 3 4 range
A 68.2
(3)
P 		36.9
(-1.1)
P 		60.9
(2)
P 		22.7
(-3)
P 		46
B 76.5
(3)
P 		41.7
(-1.7)
P 		43.3
(-1.5)
P 		32.4
(-3)
P 		44
C 76.5
(2.5)
P 		57.1
(0.3)
P 		81.2
(3)
P 		26.7
(-3)
P 		55
avr 73.7
(3) 		45.2
(-0.7) 		61.8
(1.5) 		27.3
(-3) 		46

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 207
1 2 3 4 5 6 range
A 31.6
(-3)
P 		62.2
(-1.7)
P 		34.8
(-2.9)
P 		44.6
(-2.4)
P 		74.1
(-1.1)
P 		168.8
(3)
P 		137
B 77.2
(-2)
P 		46.3
(-3)
P 		47.6
(-3)
P 		48.3
(-2.9)
P 		124.5
(-0.5)
P 		231
(3)
P 		185
C 85.6
(-1.2)
P 		46.8
(-2.3)
P 		42.2
(-2.5)
P 		24.3
(-3)
P 		101
(-0.7)
P 		226.3
(3)
P 		202
avr 64.8
(-2.1) 		51.8
(-2.6) 		41.5
(-2.9) 		39.1
(-3) 		99.9
(-0.8) 		208.7
(3) 		170
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189224_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1648
Sequence Type Exemplar sequence
Representative Public ID F42H11.2 NCBI
Target Description F42H11.2 /REP_DB=WormBase Gene ID /WP=CE10332 /TR=P90874 /GB=CAB03177.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=ankyrin domain
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_060138(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060138 NCBI Caenorhabditis elegans LEM domain protein family member (lem-3) (lem-3) mRNA, complete cds. 11/11 None
GENEFINDER00000043168 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9586840:9588414:-1 11/11 None
F42H11.2.2 ENSEMBL cdna:known chromosome:CEL140:I:9586667:9589396:-1 gene:F42H11.2 11/11 None
F42H11.2.1 ENSEMBL cdna:known chromosome:CEL140:I:9586667:9589390:-1 gene:F42H11.2 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:9586770-9589321(-) 100.0 100.0
Public Domain and Genome References
Gene Title ankyrin domain
Gene Symbol lem-3
Ensembl F42H11.2
Entrez Gene 172792 Entrez gene
SwissProt P90874 EMBL-EBI
WormBase CE10332 Wormbase
Functional Annotations
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
5635 nuclear membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8237 metallopeptidase activity inferred from electronic annotation QuickGO AmiGO
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB03177 Hypothetical protein F42H11.2 [Caenorhabditis elegans] emb|CAB05722.1| Hypothetical protein F42H11.2 [Caenorhabditis elegans] ref|NP_492539.1| LEM domain protein family member (lem-3) [Caenorhabditis elegans] 0.0
blast CAE60173 Hypothetical protein CBG03727 [Caenorhabditis briggsae] 0.0
blast CAE60173 Hypothetical protein CBG03727 [Caenorhabditis briggsae] 1.0E-163
blast AAH68429 Zgc:85936 [Danio rerio] ref|NP_999909.1| hypothetical protein LOC406563 [Danio rerio] 7.0E-23
blast XP_341410 PREDICTED: similar to 8430438L13Rik protein [Rattus norvegicus] 3.0E-20
Protein Domains
Database ID Description E-Value
scop a.140.1.LEM domain All alpha proteins; LEM/SAP HeH motif; LEM domain; LEM domain 0.00800000037997961
Pfam IPR003887 EMBL-EBI Lamino-associated polypeptide 2/emerin 3.2E-22
Pfam IPR003887 EMBL-EBI Lamino-associated polypeptide 2/emerin 3.2E-22
Pfam IPR002110 EMBL-EBI Ankyrin 0.0048
Pfam IPR002110 EMBL-EBI Ankyrin 8.8E-10
Sequence
Target Sequence 
>C. ELEGANS:189224_S_AT
ttgccagctgattttgcgtcgagagctcgaaaatgtgatgaaaacgttcggagtgaattt
agtggaaatggattcggatataatgcgttttgctatctcattatggatcctcgaattttg
ggaagcaatgtggagaaccttacacttgaaacctttgtacgatcaatcttttacgtagga
aaaggttcaaaaaatcgtccattagctcatttcattgatgctcgcaatgaacggagagac
aaattggataaactaaaaacttgcgaaaagttgaaaacaattgatgagttatggacgctt
ggatttggtattccccgacatgaaatatcccacggagtatctgacgaagaagcgtttgtg
cgagaagcaagtattatcgaagccgtgaaacttaaaaatctgaggaataaaaaagccggc
gaatttcacggaaccaccaaaagctgggacaatatcactaaatcagaatatggaacattt
ttgctggatagagcattatcaactttgaagctggaaggtattcgacttatcaccgaagat
aaccttcctgacagtctttatcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTGCCAGCTGATTTTGCGTCGAGAG 605 701 1591 Antisense
TTGCTATCTCATTATGGATCCTCGA 672 703 1680 Antisense
GAGAACCTTACACTTGAAACCTTTG 235 389 1723 Antisense
GAAACCTTTGTACGATCAATCTTTT 68 359 1738 Antisense
AATCGTCCATTAGCTCATTTCATTG 360 169 1783 Antisense
ATGAGTTATGGACGCTTGGATTTGG 641 43 1874 Antisense
GGATTTGGTATTCCCCGACATGAAA 216 509 1891 Antisense
AGAAGCAAGTATTATCGAAGCCGTG 682 73 1953 Antisense
GCCGGCGAATTTCACGGAACCACCA 466 281 2005 Antisense
AGGTATTCGACTTATCACCGAAGAT 418 49 2106 Antisense
ATAACCTTCCTGACAGTCTTTATCC 491 25 2129 Antisense
Sequence Source Affymetrix Proprietary Database