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[188729_at] SAND domain

Description C25G4.4 /REP_DB=WormBase Gene ID /WP=CE05305 /TR=Q18171 /GB=CAA94573.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=SAND domain
Cluster 6grp_high1_10_10 > 88      4grp_high_8_8 > 31      6grp_total > 97      4grp_total > 32      6grp_cgc > 69      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 58
1 2 3 4 range
A 48.4
(-3)
P 		58.6
(-0.5)
P 		72.5
(3)
P 		70.4
(2.5)
A 		24
B 61.5
(-3)
P 		73.3
(-1.4)
P 		89.1
(0.7)
P 		106.6
(3)
P 		45
C 89.8
(3)
P 		81.4
(1.3)
P 		80.5
(1.1)
P 		60.7
(-3)
P 		29
avr 66.6
(-3) 		71.1
(-1.1) 		80.7
(3) 		79.2
(2.4) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 321
1 2 3 4 5 6 range
A 46.9
(-2.9)
A 		43.6
(-3)
A 		73.4
(-2.3)
P 		120.4
(-1.3)
P 		216.3
(0.8)
P 		318.3
(3)
P 		275
B 37.6
(-3)
P 		63
(-2.5)
P 		37
(-3)
P 		90.7
(-2)
P 		243.2
(0.9)
P 		358.3
(3)
P 		321
C 85.4
(-2.5)
P 		64.8
(-3)
P 		72
(-2.8)
P 		120
(-1.7)
P 		193.8
(-0.1)
P 		329.4
(3)
P 		265
avr 56.6
(-3) 		57.1
(-3) 		60.8
(-2.9) 		110.4
(-1.8) 		217.8
(0.5) 		335.3
(3) 		279
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 17.6
(2)
P 		12.7
(-1.3)
P 		19
(3)
P 		10.3
(-3)
A 		9
B 19.6
(-1)
P 		18.1
(-3)
P 		20.6
(0.3)
P 		22.7
(3)
P 		5
C 29.7
(3)
P 		23.4
(1.1)
P 		28
(2.5)
P 		10.2
(-3)
P 		20
avr 22.3
(2.9) 		18.1
(-0.3) 		22.5
(3) 		14.4
(-3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 125
1 2 3 4 5 6 range
A 8.6
(-3)
A 		15.5
(-2.4)
A 		16
(-2.4)
P 		30.5
(-1.1)
P 		65.3
(1.9)
P 		77.5
(3)
P 		69
B 13.1
(-2.8)
P 		21
(-2.4)
P 		9
(-3)
P 		24
(-2.3)
P 		98.8
(1.3)
P 		133.6
(3)
P 		125
C 31.6
(-2.1)
P 		19.8
(-2.9)
P 		18.3
(-3)
P 		24.1
(-2.6)
P 		62.7
(-0.1)
P 		110.3
(3)
P 		92
avr 17.8
(-2.8) 		18.8
(-2.7) 		14.4
(-3) 		26.2
(-2.2) 		75.6
(1) 		107.1
(3) 		93
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188729_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10121
Sequence Type Exemplar sequence
Representative Public ID C25G4.4 NCBI
Target Description C25G4.4 /REP_DB=WormBase Gene ID /WP=CE05305 /TR=Q18171 /GB=CAA94573.1 /SUBMIT=HINXTON /CHR=4 /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_069978(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069978 NCBI Caenorhabditis elegans C25G4.4 (C25G4.4) mRNA, complete cds. 11/11 None
SNAP00000033051 ENSEMBL cdna:SNAP chromosome:CEL140:IV:12452256:12454052:-1 11/11 None
GENEFINDER00000033061 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:12452256:12454052:-1 11/11 None
C25G4.4 ENSEMBL cdna:known chromosome:CEL140:IV:12452072:12454186:-1 gene:C25G4.4 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
chrIV:12452261-12454058(-) 100.0 100.0
Public Domain and Genome References
Gene Title SAND domain
Gene Symbol tag-347
Ensembl C25G4.4
Entrez Gene 182915 Entrez gene
SwissProt Q18171 EMBL-EBI
WormBase CE05305 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 CAA94573 Hypothetical protein C25G4.4 [Caenorhabditis elegans] ref|NP_502379.1| C25G4.4 [Caenorhabditis elegans] 0.0
blast CAE64494 Hypothetical protein CBG09220 [Caenorhabditis briggsae] 1.0E-153
blast CAA88849 Hypothetical protein C44F1.2 [Caenorhabditis elegans] ref|NP_497762.2| C44F1.2 [Caenorhabditis elegans] 2.0E-65
Protein Domains
Database ID Description E-Value
Pfam IPR000770 EMBL-EBI SAND 6.6E-45
Sequence
Target Sequence 
>C. ELEGANS:188729_AT
ggagccacaagacgatcgtttcttcgaggagttcttcattgatgcgccaccactgcaatc
aatgtcatctaatgaagagccaacttcttcaaataaggaatccaatgagtgcacgccatt
caatgatattctcaattgtctgcagaacgatcctatgaatttctggtctcaaatgcaaca
aaccggtgttatcggtcatttctgcgacgacatcattgtcagtgcaatcaatctgaaaca
atccgttatggataatcctgtcactcccaccactgccaacatgctcactcgtactgcatt
cgctctcggaattccacctgtcgttgttcatcgtgttcaatcgattgaacgaaacgctta
ccaacagcggaaacatgacgaaatgtttaacgatattcaatcaactttggccgaggagca
cagtgtcaaatatcagccgagaacatcatcttcaagtcaagagagtcttcacactgctcg
agaatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGCCACAAGACGATCGTTTCTTC 134 523 708 Antisense
CGAGGAGTTCTTCATTGATGCGCCA 319 249 732 Antisense
GCCACCACTGCAATCAATGTCATCT 651 279 753 Antisense
GAATCCAATGAGTGCACGCCATTCA 168 331 805 Antisense
ACGATCCTATGAATTTCTGGTCTCA 76 95 854 Antisense
GTTATCGGTCATTTCTGCGACGACA 542 447 895 Antisense
AACATGCTCACTCGTACTGCATTCG 194 137 985 Antisense
CCTGTCGTTGTTCATCGTGTTCAAT 680 265 1024 Antisense
AACTTTGGCCGAGGAGCACAGTGTC 589 139 1110 Antisense
CAGCCGAGAACATCATCTTCAAGTC 457 203 1141 Antisense
AGAGTCTTCACACTGCTCGAGAATT 393 69 1169 Antisense
Sequence Source Affymetrix Proprietary Database