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[173897_at] Homeobox domain

Description AV187138 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C37E2.5 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV187138 /WB_GENE_ID=C37E2.5 /WP=CE08624 /CHR=X /FEA=Genomic Cluster /GEN=ceh-37 /DEF=Homeobox domain; Caenorhabditis elegans cDNA clone:yk508b6 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 84      6grp_high1_10_10 > 58      4grp_highest_8_8 > 51      4grp_high_8_8 > 24      6grp_highest_nonorm > 84      6grp_total > 47      4grp_total > 39      6grp_highest_sub > Cu      6grp_cgc > 17      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 609
1 2 3 4 range
A 844
(3)
P 		395.5
(-3)
P 		457.2
(-2.2)
P 		535.2
(-1.1)
P 		449
B 796
(3)
P 		576.8
(-1.3)
P 		492.2
(-3)
P 		688.5
(0.9)
P 		304
C 1004.7
(3)
P 		505
(-3)
P 		560.7
(-2.3)
P 		547
(-2.5)
P 		500
avr 881.6
(3) 		492.4
(-3) 		503.4
(-2.8) 		590.2
(-1.5) 		389

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 550
1 2 3 4 5 6 range
A 598
(1.2)
P 		616.3
(1.6)
P 		694.3
(3)
P 		366.8
(-3)
P 		634.4
(1.9)
P 		655.2
(2.3)
P 		328
B 916.9
(3)
P 		686.1
(-0.9)
P 		564.9
(-3)
P 		684.5
(-1)
P 		595.2
(-2.5)
P 		792.9
(0.9)
P 		352
C 638.1
(0.7)
P 		713.4
(1.8)
P 		545.4
(-0.7)
P 		392
(-3)
P 		539
(-0.8)
P 		792.2
(3)
P 		400
avr 717.7
(2.3) 		671.9
(1.3) 		601.5
(-0.3) 		481.1
(-3) 		589.5
(-0.6) 		746.8
(3) 		266
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 254
1 2 3 4 range
A 307.3
(3)
P 		85.8
(-2.8)
P 		119.5
(-1.9)
P 		78.3
(-3)
P 		229
B 253.9
(3)
P 		142.4
(-1.8)
P 		114.1
(-3)
P 		146.7
(-1.6)
P 		140
C 332.6
(3)
P 		145.2
(-1.7)
P 		195.4
(-0.4)
P 		92.2
(-3)
P 		240
avr 297.9
(3) 		124.5
(-2.4) 		143
(-1.8) 		105.7
(-3) 		192

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 240
1 2 3 4 5 6 range
A 110.2
(-2.2)
P 		219.2
(3)
P 		151.2
(-0.2)
P 		93
(-3)
P 		191.4
(1.7)
P 		159.5
(0.2)
P 		126
B 319
(3)
P 		228.4
(0)
P 		137.2
(-3)
P 		181.3
(-1.5)
P 		241.8
(0.5)
P 		295.7
(2.2)
P 		182
C 236.5
(2.1)
P 		217.7
(1.5)
P 		138.8
(-1.1)
P 		78.8
(-3)
P 		174.4
(0.1)
P 		265.2
(3)
P 		186
avr 221.9
(2.1) 		221.8
(2.1) 		142.4
(-1.8) 		117.7
(-3) 		202.5
(1.2) 		240.1
(3) 		122
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173897_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26140
Sequence Type Exemplar sequence
Representative Public ID AV187138 NCBI
Target Description AV187138 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C37E2.5 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV187138 /WB_GENE_ID=C37E2.5 /WP=CE08624 /CHR=X /FEA=Genomic Cluster /GEN=ceh-37 /DEF=Homeobox domain; Caenorhabditis elegans cDNA clone:yk508b6 : 5prime end, single read.
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_077965(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077965 NCBI Caenorhabditis elegans C.Elegans Homeobox family member (ceh-37) (ceh-37) mRNA, complete cds. 11/11 None
C37E2.5 ENSEMBL cdna:known chromosome:CEL140:X:14197356:14209073:-1 gene:C37E2.5 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
chrX:14197366-14199650(-) 100.0 100.0
Public Domain and Genome References
Gene Title Homeobox domain
Gene Symbol ceh-37
Ensembl C37E2.5
Entrez Gene 181530 Entrez gene
SwissProt Q93356 EMBL-EBI
WormBase CE08624 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.5626.1.S1_S_AT similar to orthodenticle 1 cfa
DROSOPHILA_2:1626946_AT ocelliless dm
DROSGENOME1:143425_AT ocelliless dm
U133_X3P:HS.225795.0.A1_3P_AT orthodenticle homolog 1 (Drosophila) hs
HG-U133_PLUS_2:238839_AT orthodenticle homolog 1 (Drosophila) hs
HG-U133B:238839_AT orthodenticle homolog 1 (Drosophila) hs
HG-U95E:80270_AT orthodenticle homolog 1 (Drosophila) hs
HG-U95D:68680_AT Orthodenticle homolog 1 (Drosophila) hs
MG-U74BV2:108836_AT orthodenticle homolog 1 (Drosophila) mm
MOE430B:1437601_AT orthodenticle homolog 1 (Drosophila) mm
MOUSE430_2:1437601_AT orthodenticle homolog 1 (Drosophila) mm
RG-U34A:L32602_AT orthodenticle homolog 1 (Drosophila) rn
RG-U34A:S81924_S_AT orthodenticle homolog 1 (Drosophila) rn
RAE230A:1387478_AT orthodenticle homolog 1 (Drosophila) rn
RAT230_2:1387478_AT orthodenticle homolog 1 (Drosophila) rn
RG-U34C:RC_AI072009_AT Orthodenticle homolog 1 (Drosophila) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
9299 mRNA transcription inferred from sequence similarity QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
781 chromosome, telomeric region inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
42162 telomeric DNA binding inferred from direct assay QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB02825 Hypothetical protein C37E2.5 [Caenorhabditis elegans] ref|NP_510366.1| C.Elegans Homeobox family member (ceh-37) [Caenorhabditis elegans] sp|Q93356|HM37_CAEEL Homeobox protein ceh-37 1.0E-135
blast CAE69936 Hypothetical protein CBG16312 [Caenorhabditis briggsae] 4.0E-92
blast NP_031796 cone-rod homeobox containing gene [Mus musculus] gb|AAH16502.1| Cone-rod homeobox containing gene [Mus musculus] dbj|BAE24107.1| unnamed protein product [Mus musculus] dbj|BAC35418.1| unnamed protein product [Mus musculus] sp|O54751|CRX_MOUSE Cone-rod homeobox protein gb|AAB88585.1| homeodomain protein [Mus musculus] 7.0E-23
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 1.00000003137439E-22
Pfam IPR001356 EMBL-EBI Homeobox 1.2E-24
Sequence
Target Sequence 
>C. ELEGANS:173897_AT
gaagtgtctaggtactacttaaactaaaacctatttgtattcttatttagcattcattcg
tttttgaagaaatgtgcattccatcatcccatcatccttgaaacattgtaataaattgtc
attttcatgttcctttcctgtaaatttaattctgttttgtttttgagtttactaaactga
actaccagctcaactccatgcttggtttaataaccaatttctttaattttaatgtctctt
cacaaatcaagttttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGTGTCTAGGTACTACTTAAACT 681 331 855 Antisense
GTATTCTTATTTAGCATTCATTCGT 401 453 891 Antisense
AGAAATGTGCATTCCATCATCCCAT 259 73 922 Antisense
ATCATCCCATCATCCTTGAAACATT 31 31 937 Antisense
AATTGTCATTTTCATGTTCCTTTCC 361 179 968 Antisense
TTTTCATGTTCCTTTCCTGTAAATT 276 677 976 Antisense
TTCCTTTCCTGTAAATTTAATTCTG 128 699 984 Antisense
TTACTAAACTGAACTACCAGCTCAA 603 683 1023 Antisense
AGCTCAACTCCATGCTTGGTTTAAT 267 79 1041 Antisense
TCTTTAATTTTAATGTCTCTTCACA 464 615 1074 Antisense
ATGTCTCTTCACAAATCAAGTTTTT 231 49 1086 Antisense
Sequence Source Affymetrix Proprietary Database