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[193622_at]

Description B0564.10 /REP_DB=WormBase Gene ID /WP=CE05183 /GEN=unc-30 /TR=SW:P52906 /GB=CAA97770.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=homeobox protein (otd subfamily)
Cluster 6grp_total > 35      4grp_total > 36      6grp_cgc > 44      6grp_cgc_sub > 02      6grp_total_sub > Cup      6grp_rule_based > S2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 126
1 2 3 4 range
A 80.5
(0)
A 		121.4
(3)
A 		39.2
(-3)
A 		64.7
(-1.1)
A 		82
B 62.7
(0.5)
A 		86.9
(3)
A 		35.5
(-2.2)
A 		27.7
(-3)
A 		59
C 94.2
(-0.5)
M 		153.2
(3)
A 		52.3
(-3)
A 		104.4
(0.1)
A 		101
avr 79.1
(-0.2) 		120.5
(3) 		42.3
(-3) 		65.6
(-1.2) 		78

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 108
1 2 3 4 5 6 range
A 75.5
(2.1)
A 		86.6
(3)
A 		48.2
(-0)
A 		46
(-0.2)
A 		9.9
(-3)
A 		63.4
(1.2)
A 		77
B 76.3
(0.6)
A 		118.1
(3)
A 		89.4
(1.3)
A 		48.7
(-1)
A 		14.3
(-3)
A 		18.7
(-2.7)
A 		104
C 52.6
(-0.1)
P 		91.8
(3)
A 		88.7
(2.8)
A 		14.8
(-3)
A 		46
(-0.6)
A 		30.4
(-1.8)
A 		77
avr 68.1
(0.6) 		98.8
(3) 		75.4
(1.1) 		36.5
(-2) 		23.4
(-3) 		37.5
(-1.9) 		75
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 38
1 2 3 4 range
A 29.3
(3)
A 		26.3
(2.1)
A 		10.3
(-2.8)
A 		9.5
(-3)
A 		20
B 20
(2.4)
A 		21.5
(3)
A 		8.2
(-2.1)
A 		5.9
(-3)
A 		16
C 31.2
(0.1)
M 		44
(3)
A 		18.2
(-2.9)
A 		17.6
(-3)
A 		26
avr 26.8
(1.8) 		30.6
(3) 		12.2
(-2.6) 		11
(-3) 		20

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 36
1 2 3 4 5 6 range
A 13.9
(-0.6)
A 		30.8
(3)
A 		10.5
(-1.4)
A 		11.7
(-1.1)
A 		3
(-3)
A 		15.4
(-0.3)
A 		28
B 26.6
(0.7)
A 		39.3
(3)
A 		21.7
(-0.2)
A 		12.9
(-1.7)
A 		5.8
(-3)
A 		7
(-2.8)
A 		34
C 19.5
(1)
P 		28
(3)
A 		22.6
(1.7)
A 		3
(-3)
A 		14.9
(-0.1)
A 		10.2
(-1.3)
A 		25
avr 20
(-0.1) 		32.7
(3) 		18.3
(-0.5) 		9.2
(-2.7) 		7.9
(-3) 		10.9
(-2.3) 		25
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193622_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9665
Sequence Type Exemplar sequence
Representative Public ID B0564.10 NCBI
Target Description B0564.10 /REP_DB=WormBase Gene ID /WP=CE05183 /GEN=unc-30 /TR=SW:P52906 /GB=CAA97770.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=homeobox protein (otd subfamily)
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_001026105(11), NM_001026106(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026105 NCBI Caenorhabditis elegans UNCoordinated family member (unc-30) (unc-30) mRNA, complete cds. 11/11 None
NM_001026106 NCBI Caenorhabditis elegans UNCoordinated family member (unc-30) (unc-30) mRNA, complete cds. 11/11 None
SNAP00000043357 ENSEMBL cdna:SNAP chromosome:CEL140:IV:13120336:13123024:1 11/11 None
GENEFINDER00000043362 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:13119184:13124225:1 11/11 None
B0564.10a ENSEMBL cdna:known chromosome:CEL140:IV:13119066:13124357:1 gene:B0564.10 11/11 A 
B0564.10b ENSEMBL cdna:known chromosome:CEL140:IV:13119184:13124225:1 gene:B0564.10 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
chrIV:13119189-13124231(+) 100.0 100.0
Public Domain and Genome References
Ensembl B0564.10
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAE54882 Hypothetical protein B0564.10b [Caenorhabditis elegans] ref|NP_001021277.1| UNCoordinated family member (unc-30) [Caenorhabditis elegans] 1.0E-154
blast CAA97770 Hypothetical protein B0564.10a [Caenorhabditis elegans] ref|NP_001021276.1| UNCoordinated family member (unc-30) [Caenorhabditis elegans] sp|P52906|UNC30_CAEEL Homeobox protein unc-30 1.0E-152
blast AAA63155 homeodomain protein prf||2101290A UNC-30 protein 1.0E-150
blast CAE54882 Hypothetical protein B0564.10b [Caenorhabditis elegans] ref|NP_001021277.1| UNCoordinated family member (unc-30) [Caenorhabditis elegans] 1.0E-150
blast CAA97770 Hypothetical protein B0564.10a [Caenorhabditis elegans] ref|NP_001021276.1| UNCoordinated family member (unc-30) [Caenorhabditis elegans] sp|P52906|UNC30_CAEEL Homeobox protein unc-30 1.0E-150
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 1.99999999963992E-23
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 9.99999999819959E-24
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 2.00000003908296E-24
Pfam IPR001356 EMBL-EBI Homeobox 4.6E-26
Pfam IPR001356 EMBL-EBI Homeobox 4.6E-26
Sequence
Target Sequence 
>C. ELEGANS:193622_AT
cagaggacacattttacgagccatcagctaaccgaattggaaaactggttctcccgaaat
cgctatcccgacatggcttgtcgagaagaaatcgccgtctggatcagcttgaccgagcct
cgagtgagagtttggttcaagaatcgacgtgccaaatggaggaaacgcgaacgaaactat
gtgattgacaacgggcagggcaccacgaaggtcacggcgcaaagtttggatccacttggc
tcacttcagaacacgtttccacagacgttgttgcagagcagcagcagtcagctagacgac
tctgcagtaacgtcatcctctttctatggatacggtggcgcgtggcaacagaatccata

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAGAGGACACATTTTACGAGCCATC 246 205 355 Antisense
TCGCTATCCCGACATGGCTTGTCGA 593 599 414 Antisense
AAGAAATCGCCGTCTGGATCAGCTT 165 153 440 Antisense
ATCAGCTTGACCGAGCCTCGAGTGA 443 27 457 Antisense
TGATTGACAACGGGCAGGGCACCAC 415 563 536 Antisense
AAGTTTGGATCCACTTGGCTCACTT 448 157 576 Antisense
TGGCTCACTTCAGAACACGTTTCCA 591 545 591 Antisense
GTTTCCACAGACGTTGTTGCAGAGC 415 451 609 Antisense
GCAGCAGTCAGCTAGACGACTCTGC 14 313 635 Antisense
ACGACTCTGCAGTAACGTCATCCTC 560 91 650 Antisense
GTGGCGCGTGGCAACAGAATCCATA 151 493 689 Antisense
Sequence Source Affymetrix Proprietary Database