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[173171_s_at]

Description AV184705_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV184705 /DEF=Caenorhabditis elegans cDNA clone:yk668d10 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 86      6grp_high1_10_10 > 77      4grp_highest_8_8 > 33      4grp_high_8_8 > 58      6grp_highest_nonorm > 93      6grp_total > 67      4grp_total > 61      6grp_highest_sub > Da      6grp_cgc > 48      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.
4 231
1 2 3 4 range
A 381.9
(-3)
P 		410.7
(0.1)
P 		399.6
(-1.1)
P 		438.4
(3)
P 		57
B 497.9
(3)
P 		267
(-3)
P 		403.1
(0.5)
P 		387.3
(0.1)
P 		231
C 348.4
(-0.9)
P 		492.7
(3)
P 		392.3
(0.3)
P 		271.8
(-3)
P 		221
avr 409.4
(3) 		390.1
(0.3) 		398.3
(1.5) 		365.8
(-3) 		44

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 413
1 2 3 4 5 6 range
A 235.3
(-3)
P 		386.8
(0.3)
P 		301.4
(-1.6)
P 		349.4
(-0.5)
P 		332.2
(-0.9)
P 		514.2
(3)
P 		279
B 342.4
(-1.6)
P 		278.9
(-2.8)
P 		376.8
(-1)
P 		266.8
(-3)
P 		359.1
(-1.3)
P 		599.9
(3)
P 		333
C 357.2
(-1.4)
P 		307.1
(-2.1)
P 		283
(-2.5)
P 		248.2
(-3)
P 		386.6
(-0.9)
P 		648.3
(3)
P 		400
avr 311.6
(-2.5) 		324.3
(-2.3) 		320.4
(-2.4) 		288.1
(-3) 		359.3
(-1.6) 		587.5
(3) 		299
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 113
1 2 3 4 range
A 139.1
(3)
P 		89.1
(-1)
P 		104.5
(0.2)
P 		64.2
(-3)
P 		75
B 158.8
(3)
P 		65.9
(-3)
P 		93.4
(-1.2)
P 		82.5
(-1.9)
P 		93
C 115.3
(1.4)
P 		141.6
(3)
P 		136.7
(2.7)
P 		45.8
(-3)
P 		96
avr 137.7
(3) 		98.9
(-0.2) 		111.5
(0.9) 		64.2
(-3) 		74

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 180
1 2 3 4 5 6 range
A 43.4
(-3)
P 		137.6
(3)
P 		65.6
(-1.6)
P 		88.6
(-0.1)
P 		100.2
(0.6)
P 		125.2
(2.2)
P 		94
B 119.1
(-1.1)
P 		92.8
(-2.1)
P 		91.5
(-2.2)
P 		70.7
(-3)
P 		145.9
(-0.1)
P 		223.7
(3)
P 		153
C 132.4
(-0)
P 		93.7
(-1.4)
P 		72
(-2.2)
P 		49.9
(-3)
P 		125.1
(-0.3)
P 		217
(3)
P 		167
avr 98.3
(-1.6) 		108
(-1.1) 		76.4
(-2.7) 		69.7
(-3) 		123.7
(-0.3) 		188.6
(3) 		119
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173171_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26888
Sequence Type Exemplar sequence
Representative Public ID AV184705 NCBI
Target Description AV184705_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV184705 /DEF=Caenorhabditis elegans cDNA clone:yk668d10 : 3prime end, single read.
Cluster Evidence This cluster is supported by a EST Transcript.
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_058506(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058506 NCBI Caenorhabditis elegans human EMeRin homolog family member (emr-1) (emr-1) mRNA, complete cds. 11/11 A 
SNAP00000009588 ENSEMBL cdna:SNAP chromosome:CEL140:I:1842461:1843087:1 11/11 None
GENEFINDER00000009606 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:1842461:1843126:1 11/11 None
M01D7.6.1 ENSEMBL cdna:known chromosome:CEL140:I:1842444:1843210:1 gene:M01D7.6 11/11 A 
M01D7.6.2 ENSEMBL cdna:known chromosome:CEL140:I:1842444:1843157:1 gene:M01D7.6 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
chrI:1842823-1843157(+) 77.0 87.67
Public Domain and Genome References
Gene Title
Gene Symbol emr-1
Ensembl M01D7.6
Entrez Gene 171752 Entrez gene
SwissProt O01971 EMBL-EBI
WormBase CE12270 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5635 nuclear membrane inferred from electronic annotation QuickGO AmiGO
5639 integral to nuclear inner membrane inferred from direct assay QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB58065 Human emerin homolog protein 1 [Caenorhabditis elegans] ref|NP_490907.1| human EMeRin homolog family member (emr-1) [Caenorhabditis elegans] sp|O01971|EMR1_CAEEL Emerin homolog 1 (Ce-emerin) 4.0E-62
blast AAB58065 Human emerin homolog protein 1 [Caenorhabditis elegans] ref|NP_490907.1| human EMeRin homolog family member (emr-1) [Caenorhabditis elegans] sp|O01971|EMR1_CAEEL Emerin homolog 1 (Ce-emerin) 1.0E-61
blast CAE74464 Hypothetical protein CBG22210 [Caenorhabditis briggsae] 4.0E-16
blast CAE74464 Hypothetical protein CBG22210 [Caenorhabditis briggsae] 5.0E-16
Protein Domains
Database ID Description E-Value
scop a.140.1.LEM domain All alpha proteins; LEM/SAP HeH motif; LEM domain; LEM domain 9.99999993922529E-9
Pfam IPR003887 EMBL-EBI Lamino-associated polypeptide 2/emerin 8.6E-25
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_490907.1 1 126-148
M01D7.6.1 1 126-148
M01D7.6.2 1 126-148
SNAP00000009588 1 126-148
GENEFINDER00000009606 1 126-148
Sequence
Target Sequence 
>C. ELEGANS:173171_S_AT
ggagtcgatgcgatacttgacggaagaggaaatggccgccgatcgggcatcggctcgtca
agctcagagcaacaaaggaggattcttgggaagcacgatcacattcacaattctcttcgt
cttcatcgccgtcttcgcctacttcttgatcgagaacgccgagcagttgaagctcgtggc
cgagacgaatccggaggatactattt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGTCGATGCGATACTTGACGGAA 210 517 17 Antisense
AAGAGGAAATGGCCGCCGATCGGGC 658 153 40 Antisense
GCATCGGCTCGTCAAGCTCAGAGCA 447 309 63 Antisense
GCTCAGAGCAACAAAGGAGGATTCT 51 301 78 Antisense
GAGGATTCTTGGGAAGCACGATCAC 342 403 94 Antisense
GCACGATCACATTCACAATTCTCTT 597 315 109 Antisense
TCTTCGCCTACTTCTTGATCGAGAA 633 617 148 Antisense
TCTTGATCGAGAACGCCGAGCAGTT 476 615 160 Antisense
TCGAGAACGCCGAGCAGTTGAAGCT 670 597 166 Antisense
CTCGTGGCCGAGACGAATCCGGAGG 417 231 189 Antisense
GAGACGAATCCGGAGGATACTATTT 177 393 198 Antisense
Sequence Source Affymetrix Proprietary Database