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[188653_at] SAND domain

Description C44F1.2 /REP_DB=WormBase Gene ID /WP=CE02162 /TR=Q18624 /GB=CAA88849.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=SAND domain
Cluster 6grp_total > 95      4grp_total > 53      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 47
1 2 3 4 range
A 47
(3)
A 		13.2
(-3)
A 		19.6
(-1.9)
A 		14.1
(-2.8)
A 		34
B 10.2
(-3)
A 		22.9
(3)
A 		19.6
(1.4)
A 		16.2
(-0.2)
A 		13
C 42.9
(-3)
A 		56.7
(3)
A 		47.2
(-1.1)
A 		45.8
(-1.7)
A 		14
avr 33.4
(3) 		30.9
(1.1) 		28.8
(-0.4) 		25.4
(-3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 97
1 2 3 4 5 6 range
A 12.2
(-2.7)
A 		7
(-3)
A 		55.4
(0.1)
A 		50.5
(-0.3)
A 		74.1
(1.2)
P 		102.2
(3)
A 		95
B 33.2
(-1.3)
A 		15.5
(-2.4)
A 		7
(-3)
A 		52.7
(0)
A 		95.8
(2.8)
P 		98.4
(3)
P 		91
C 5.7
(-3)
A 		46.2
(0)
A 		45.8
(0)
A 		82.2
(2.7)
A 		80
(2.6)
P 		85.8
(3)
P 		80
avr 17
(-3) 		22.9
(-2.5) 		36.1
(-1.5) 		61.8
(0.4) 		83.3
(2.1) 		95.5
(3) 		79
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15
1 2 3 4 range
A 17.1
(3)
A 		2.9
(-2.7)
A 		5.1
(-1.8)
A 		2.1
(-3)
A 		15
B 3.2
(-3)
A 		5.7
(3)
A 		4.5
(0.1)
A 		3.5
(-2.3)
A 		3
C 14.2
(1.4)
A 		16.3
(2.9)
A 		16.5
(3)
A 		7.7
(-3)
A 		9
avr 11.5
(3) 		8.3
(0.3) 		8.7
(0.6) 		4.4
(-3) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 37
1 2 3 4 5 6 range
A 2.3
(-3)
A 		2.5
(-2.9)
A 		12.1
(-0.4)
A 		12.8
(-0.2)
A 		22.4
(2.3)
P 		24.9
(3)
A 		23
B 11.6
(-1.4)
A 		5.1
(-2.5)
A 		1.7
(-3)
A 		14
(-1)
A 		38.9
(3)
P 		36.7
(2.6)
P 		37
C 2.1
(-3)
A 		14.1
(-0.3)
A 		11.7
(-0.8)
A 		16.5
(0.2)
A 		25.9
(2.4)
P 		28.7
(3)
P 		27
avr 5.3
(-3) 		7.2
(-2.5) 		8.5
(-2.2) 		14.4
(-0.8) 		29.1
(2.8) 		30.1
(3) 		25
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188653_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6400
Sequence Type Exemplar sequence
Representative Public ID C44F1.2 NCBI
Target Description C44F1.2 /REP_DB=WormBase Gene ID /WP=CE02162 /TR=Q18624 /GB=CAA88849.1 /SUBMIT=HINXTON /CHR=3 /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_065361(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065361 NCBI Caenorhabditis elegans C44F1.2 (C44F1.2) mRNA, complete cds. 11/11 None
SNAP00000024031 ENSEMBL cdna:SNAP chromosome:CEL140:III:3768526:3770227:1 11/11 None
GENEFINDER00000024036 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:3768526:3771169:1 11/11 None
C44F1.2 ENSEMBL cdna:known chromosome:CEL140:III:3768521:3770227:1 gene:C44F1.2 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
chrIII:3768525-3770227(+) 99.56 100.0
Public Domain and Genome References
Gene Title SAND domain
Ensembl C44F1.2
Entrez Gene 175487 Entrez gene
SwissProt Q18624 EMBL-EBI
WormBase CE31443 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 CAA88849 Hypothetical protein C44F1.2 [Caenorhabditis elegans] ref|NP_497762.2| C44F1.2 [Caenorhabditis elegans] 0.0
blast CAE64494 Hypothetical protein CBG09220 [Caenorhabditis briggsae] 7.0E-64
blast CAE64494 Hypothetical protein CBG09220 [Caenorhabditis briggsae] 9.0E-64
blast CAA94573 Hypothetical protein C25G4.4 [Caenorhabditis elegans] ref|NP_502379.1| C25G4.4 [Caenorhabditis elegans] 8.0E-60
Protein Domains
Database ID Description E-Value
Pfam IPR000770 EMBL-EBI SAND 5.1E-47
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000024036 1 377-399
Sequence
Target Sequence 
>C. ELEGANS:188653_AT
agctccagttaacaaacgtcacctcgaagatgttctagcttccggagatgatgcatctga
gccaacggagcaaagtagtggacaaattagtgaagagccaatcaagaaaagaggtcgtgg
gcgtccagcaggcaagaaaaacaaggcaaagctggaaatcaactttgttgaatcagaaga
tcagcttgtttttgaagagttcttccagccagctttctcaacaagatccccagctccaga
aagacctgtgtgcagcccagctcaggatatttacagttgtctgcaaaatgatccaatgag
tttctggtctcaaatcaagcgaagcggcttcatttctcaattctgtgatgacataattgc
cggtgctatcaatctgaaacaatctgcaatgactcaatccttgaatcaaaatagtgcatt
tgttctgactcgtgccacatttgctcttggtatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCTCCAGTTAACAAACGTCACCTC 221 71 534 Antisense
ACGTCACCTCGAAGATGTTCTAGCT 240 93 549 Antisense
GATGATGCATCTGAGCCAACGGAGC 184 411 580 Antisense
TTGAAGAGTTCTTCCAGCCAGCTTT 159 705 725 Antisense
CAGCTTTCTCAACAAGATCCCCAGC 613 203 743 Antisense
TCCCCAGCTCCAGAAAGACCTGTGT 191 595 760 Antisense
GTGCAGCCCAGCTCAGGATATTTAC 191 471 783 Antisense
AGCGAAGCGGCTTCATTTCTCAATT 1 83 851 Antisense
GATGACATAATTGCCGGTGCTATCA 653 411 880 Antisense
TAGTGCATTTGTTCTGACTCGTGCC 220 655 945 Antisense
TCGTGCCACATTTGCTCTTGGTATC 481 605 963 Antisense
Sequence Source Affymetrix Proprietary Database