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[188666_at] SAND domain

Description F53H4.5 /REP_DB=WormBase Gene ID /WP=CE11036 /TR=Q93779 /GB=CAB03138.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=SAND domain
Cluster 6grp_total > 82      4grp_total > 50      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 127
1 2 3 4 range
A 100.2
(1.6)
M 		108.7
(2.2)
M 		121.5
(3)
A 		27.1
(-3)
A 		94
B 60
(-1.8)
A 		153.9
(3)
A 		113.8
(0.9)
M 		37.1
(-3)
A 		117
C 44
(-3)
A 		147.8
(3)
M 		123.5
(1.6)
P 		77.7
(-1.1)
A 		104
avr 68.1
(-1.6) 		136.8
(3) 		119.6
(1.8) 		47.3
(-3) 		90

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 100
1 2 3 4 5 6 range
A 88.5
(-1.3)
A 		100.4
(0.1)
P 		95.2
(-0.5)
A 		76.3
(-2.8)
A 		124
(3)
A 		74.9
(-3)
A 		49
B 76.2
(-3)
A 		115.3
(3)
P 		80.8
(-2.3)
P 		107.5
(1.8)
P 		106.3
(1.6)
P 		77.8
(-2.8)
P 		39
C 51.1
(-2.7)
A 		112.7
(1)
M 		73.4
(-1.4)
A 		146.5
(3)
A 		85.8
(-0.7)
A 		46.9
(-3)
A 		100
avr 71.9
(-2.3) 		109.5
(2.9) 		83.1
(-0.7) 		110.1
(3) 		105.4
(2.4) 		66.5
(-3) 		44
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 39
1 2 3 4 range
A 36.5
(3)
M 		23.6
(0.6)
M 		31.8
(2.1)
A 		4
(-3)
A 		33
B 19.1
(-0.8)
A 		38
(3)
A 		26.4
(0.7)
M 		7.9
(-3)
A 		30
C 14.6
(-2.7)
A 		42.5
(2.9)
M 		43
(3)
P 		13.1
(-3)
A 		30
avr 23.4
(0.4) 		34.7
(3) 		33.7
(2.8) 		8.3
(-3) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 28
1 2 3 4 5 6 range
A 16.3
(-3)
A 		35.7
(2.5)
P 		20.7
(-1.7)
A 		19.4
(-2.1)
A 		37.4
(3)
A 		18.2
(-2.5)
A 		21
B 26.5
(-1.2)
A 		38.4
(1.8)
P 		19.6
(-3)
P 		28.5
(-0.7)
P 		43.2
(3)
P 		29
(-0.6)
P 		24
C 18.9
(-2)
A 		34.4
(3)
M 		18.7
(-2)
A 		29.5
(1.4)
A 		27.8
(0.9)
A 		15.7
(-3)
A 		19
avr 20.6
(-2.7) 		36.2
(3) 		19.7
(-3) 		25.8
(-0.8) 		36.1
(3) 		21
(-2.5) 		17
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188666_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17512
Sequence Type Exemplar sequence
Representative Public ID F53H4.5 NCBI
Target Description F53H4.5 /REP_DB=WormBase Gene ID /WP=CE11036 /TR=Q93779 /GB=CAB03138.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=SAND 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_078209(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078209 NCBI Caenorhabditis elegans F53H4.5 (F53H4.5) mRNA, complete cds. 9/11 None
GENEFINDER00000026514 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:15879013:15885060:1 9/11 None
SNAP00000026507 ENSEMBL cdna:SNAP chromosome:CEL140:X:15881278:15885060:1 9/11 None
F53H4.5 ENSEMBL cdna:known chromosome:CEL140:X:15882017:15885060:1 gene:F53H4.5 9/11 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
chrX:15881953-15885060(+) 100.0 100.0
Public Domain and Genome References
Gene Title SAND domain
Ensembl F53H4.5
Entrez Gene 181676 Entrez gene
SwissProt Q93779 EMBL-EBI
WormBase CE35554 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB03138 Hypothetical protein F53H4.5 [Caenorhabditis elegans] ref|NP_510610.2| F53H4.5 [Caenorhabditis elegans] 0.0
blast CAE69727 Hypothetical protein CBG15998 [Caenorhabditis briggsae] 0.0
blast CAE69727 Hypothetical protein CBG15998 [Caenorhabditis briggsae] 1.0E-175
blast CAE64494 Hypothetical protein CBG09220 [Caenorhabditis briggsae] 1.0E-26
blast CAE64494 Hypothetical protein CBG09220 [Caenorhabditis briggsae] 2.0E-26
Protein Domains
Database ID Description E-Value
Pfam IPR000770 EMBL-EBI SAND 3.1E-19
Pfam IPR000770 EMBL-EBI SAND 8.2E-22
Pfam IPR000770 EMBL-EBI SAND 8.2E-22
Sequence
Target Sequence 
>C. ELEGANS:188666_AT
gaacgcggctgacacattttgcaacacaatgcaagcaatggagagtttacaagctgaaat
tgcgaaagaagagaagcacttgatgaagagccaaccacaagttcacaggttgtcatcaga
cttctcctcgctggaggaagagatacctgggagaaagagatccctggatatttctgcgtt
gattgggcagcctcatgcgaaacgaccatcgcttactacatctatgcgtgttgctcaata
ttgccttctcatatttcaattactatgtacaaaacttttgttgaatataggactcgaaga
cggtccagaacctccatcaactgtccaacacttgctaaccccaatcaagccaattgtgca
aatccctaaagccataagtccacaggagatgctgatgaacattgctagcagcatgggctc
caacattgacagaaatcatgtcctggcagcgttgca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAACGCGGCTGACACATTTTGCAAC 445 347 930 Antisense
ACAGGTTGTCATCAGACTTCTCCTC 239 107 1034 Antisense
GAGATCCCTGGATATTTCTGCGTTG 289 395 1086 Antisense
GCGTTGATTGGGCAGCCTCATGCGA 560 291 1105 Antisense
CGACCATCGCTTACTACATCTATGC 490 251 1132 Antisense
TGCGTGTTGCTCAATATTGCCTTCT 343 583 1154 Antisense
GACTCGAAGACGGTCCAGAACCTCC 393 373 1220 Antisense
AACACTTGCTAACCCCAATCAAGCC 595 135 1256 Antisense
AATCCCTAAAGCCATAAGTCCACAG 244 167 1290 Antisense
ATTGCTAGCAGCATGGGCTCCAACA 361 3 1330 Antisense
GAAATCATGTCCTGGCAGCGTTGCA 418 363 1361 Antisense
Sequence Source Affymetrix Proprietary Database