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[183461_at]

Description Y48C3A.9 /REP_DB=WormBase Gene ID /WP=CE24386 /TR=Q9U291 /GB=CAB60419.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 67      4grp_total > 23      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 117
1 2 3 4 range
A 123.9
(3)
A 		20.8
(-3)
A 		20.1
(-3)
A 		80.2
(0.5)
A 		104
B 105.9
(3)
A 		7
(-3)
A 		16.9
(-2.4)
A 		46.5
(-0.6)
A 		99
C 87.7
(1.5)
A 		21.5
(-2.3)
A 		10.2
(-3)
A 		113.1
(3)
A 		103
avr 105.8
(3) 		16.4
(-3) 		15.7
(-3) 		79.9
(1.3) 		90

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 45
1 2 3 4 5 6 range
A 17.9
(3)
A 		17.7
(2.9)
A 		14.3
(0.9)
A 		7.9
(-2.9)
A 		7.7
(-3)
A 		8.7
(-2.4)
A 		10
B 5.6
(-2.7)
A 		3.9
(-2.9)
A 		3.2
(-3)
A 		10.3
(-2)
A 		14.2
(-1.5)
A 		47.9
(3)
A 		45
C 7.7
(-1.3)
A 		6.1
(-2)
A 		17.2
(3)
A 		3.8
(-3)
A 		8
(-1.1)
A 		10.4
(-0)
A 		13
avr 10.4
(-1.8) 		9.2
(-2.2) 		11.6
(-1.3) 		7.3
(-3) 		10
(-1.9) 		22.3
(3) 		15
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 43
1 2 3 4 range
A 45.1
(3)
A 		4.5
(-3)
A 		5.2
(-2.9)
A 		11.7
(-1.9)
A 		41
B 33.8
(3)
A 		1.7
(-3)
A 		3.9
(-2.6)
A 		9.9
(-1.5)
A 		32
C 29
(3)
A 		6.2
(-2.4)
A 		3.6
(-3)
A 		19.1
(0.7)
A 		25
avr 36
(3) 		4.1
(-3) 		4.2
(-3) 		13.6
(-1.2) 		32

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 17
1 2 3 4 5 6 range
A 3.3
(-1.2)
A 		6.3
(3)
A 		3.1
(-1.5)
A 		2
(-3)
A 		2.3
(-2.6)
A 		2.1
(-2.9)
A 		4
B 1.9
(-2.6)
A 		1.3
(-2.8)
A 		0.8
(-3)
A 		2.7
(-2.3)
A 		5.8
(-1.2)
A 		17.8
(3)
A 		17
C 2.8
(0.3)
A 		1.9
(-1.2)
A 		4.4
(3)
A 		0.8
(-3)
A 		2.6
(0)
A 		3.5
(1.5)
A 		4
avr 2.7
(-2.1) 		3.2
(-1.6) 		2.8
(-2) 		1.8
(-3) 		3.6
(-1.2) 		7.8
(3) 		6
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183461_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3835
Sequence Type Exemplar sequence
Representative Public ID Y48C3A.9 NCBI
Target Description Y48C3A.9 /REP_DB=WormBase Gene ID /WP=CE24386 /TR=Q9U291 /GB=CAB60419.1 /SUBMIT=HINXTON /CHR=2 /FEA=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_064415(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064415 NCBI Caenorhabditis elegans Y48C3A.9 (Y48C3A.9) mRNA, complete cds. 11/11 None
GENEFINDER00000006660 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:13323342:13330421:-1 10/11 None
Y48C3A.9 ENSEMBL cdna:known chromosome:CEL140:II:13325786:13330678:-1 gene:Y48C3A.9 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
chrII:13325782-13330418(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y48C3A.9
Entrez Gene 3565299 Entrez gene
SwissProt Q9U291 EMBL-EBI
WormBase CE24386 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1634037_S_AT Sequence-specific single-stranded DNA-binding protein dm
DROSGENOME1:153346_AT Sequence-specific single-stranded DNA-binding protein dm
CHICKEN:GGA.10844.1.A1_AT single stranded DNA binding protein 3 gga
CHICKEN:GGA.4057.1.S1_AT single stranded DNA binding protein 3 gga
CHICKEN:GGA.4057.2.S1_A_AT single stranded DNA binding protein 3 gga
HG-U133B:223635_S_AT single stranded DNA binding protein 3 hs
HG-U133_PLUS_2:223635_S_AT single stranded DNA binding protein 3 hs
HG-U133_PLUS_2:217991_X_AT single stranded DNA binding protein 3 hs
HG-U133A:217991_X_AT single stranded DNA binding protein 3 hs
HG-U133A_2:217991_X_AT single stranded DNA binding protein 3 hs
HU35KSUBC:RC_W91960_AT single stranded DNA binding protein 3 hs
U133_X3P:G13097827_3P_A_AT single stranded DNA binding protein 3 hs
U133_X3P:HS.266914.0.A2_3P_AT single stranded DNA binding protein 3 hs
HG-U133_PLUS_2:222482_AT single stranded DNA binding protein 3 hs
HG-U133B:222482_AT single stranded DNA binding protein 3 hs
HG-U95C:62485_AT single stranded DNA binding protein 3 hs
HG-U95E:78733_AT single stranded DNA binding protein 3 hs
HG-U95D:83214_AT single stranded DNA binding protein 3 hs
HG-U95E:91281_AT single stranded DNA binding protein 3 hs
HG-U133_PLUS_2:233794_AT Single stranded DNA binding protein 3 hs
HG-U133B:233794_AT Single stranded DNA binding protein 3 hs
HG-U133_PLUS_2:232469_X_AT Single stranded DNA binding protein 3 hs
HG-U133B:232469_X_AT Single stranded DNA binding protein 3 hs
U133_X3P:HS.296531.0.S1_3P_AT Single stranded DNA binding protein 3 hs
U133_X3P:HS.288801.0.S1_3P_X_AT Single stranded DNA binding protein 3 hs
U133_X3P:232469_3P_X_AT Single stranded DNA binding protein 3 hs
HG-U95E:71576_AT Single stranded DNA binding protein 3 hs
HG-U95B:45331_AT Single stranded DNA binding protein 3 hs
HG-U95E:71051_AT Single stranded DNA binding protein 3 hs
HG-U95E:79042_AT Single stranded DNA binding protein 3 hs
HG-U95D:79294_I_AT Single stranded DNA binding protein 3 hs
HG-U95D:79295_R_AT Single stranded DNA binding protein 3 hs
HG-U95D:83281_AT Single stranded DNA binding protein 3 hs
MOUSE430_2:1425940_A_AT single-stranded DNA binding protein 3 mm
MOUSE430A_2:1425940_A_AT single-stranded DNA binding protein 3 mm
MOE430A:1425940_A_AT single-stranded DNA binding protein 3 mm
MG-U74BV2:112680_AT single-stranded DNA binding protein 3 mm
MG-U74BV2:117147_AT single-stranded DNA binding protein 3 mm
MG-U74CV2:170771_I_AT single-stranded DNA binding protein 3 mm
MOE430A:1427917_S_AT single-stranded DNA binding protein 3 mm
MOUSE430A_2:1427917_S_AT single-stranded DNA binding protein 3 mm
MOUSE430_2:1427917_S_AT single-stranded DNA binding protein 3 mm
MOE430B:1457560_AT Single-stranded DNA binding protein 3, mRNA (cDNA clone MGC:36847 IMAGE:4208359) mm
MOUSE430_2:1457560_AT Single-stranded DNA binding protein 3, mRNA (cDNA clone MGC:36847 IMAGE:4208359) mm
MG-U74CV2:129297_AT Single-stranded DNA binding protein 3, mRNA (cDNA clone MGC:36847 IMAGE:4208359) mm
MOUSE430_2:1439136_AT Single-stranded DNA binding protein 3, mRNA (cDNA clone MGC:36847 IMAGE:4208359) mm
MOE430B:1439136_AT Single-stranded DNA binding protein 3, mRNA (cDNA clone MGC:36847 IMAGE:4208359) mm
MOUSE430_2:1443554_AT Single-stranded DNA binding protein 3, mRNA (cDNA clone MGC:36847 IMAGE:4208359) mm
MOE430B:1443554_AT Single-stranded DNA binding protein 3, mRNA (cDNA clone MGC:36847 IMAGE:4208359) mm
MOE430B:1458749_AT Single-stranded DNA binding protein 3, mRNA (cDNA clone MGC:36847 IMAGE:4208359) mm
MOUSE430_2:1458749_AT Single-stranded DNA binding protein 3, mRNA (cDNA clone MGC:36847 IMAGE:4208359) mm
MU19KSUBA:TC24105_AT Single-stranded DNA binding protein 3, mRNA (cDNA clone MGC:36847 IMAGE:4208359) mm
MU19KSUBB:TC30855_R_AT Single-stranded DNA binding protein 3, mRNA (cDNA clone MGC:36847 IMAGE:4208359) mm
MU19KSUBC:TC36750_AT Single-stranded DNA binding protein 3, mRNA (cDNA clone MGC:36847 IMAGE:4208359) mm
MU19KSUBC:TC38550_AT Single-stranded DNA binding protein 3, mRNA (cDNA clone MGC:36847 IMAGE:4208359) mm
RG-U34B:RC_AA925872_AT single stranded DNA binding protein 3 rn
RAE230A:1368517_AT single stranded DNA binding protein 3 rn
RAT230_2:1368517_AT single stranded DNA binding protein 3 rn
RG-U34C:RC_AI235208_AT Single stranded DNA binding protein 3 rn
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
3697 single-stranded DNA binding inferred from electronic annotation QuickGO AmiGO
30528 transcription regulator activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB60419 Hypothetical protein Y48C3A.9 [Caenorhabditis elegans] ref|NP_496816.1| Y48C3A.9 [Caenorhabditis elegans] 3.0E-75
blast T31593 hypothetical protein Y48C3A.k - Caenorhabditis elegans 2.0E-69
blast CAB60419 Hypothetical protein Y48C3A.9 [Caenorhabditis elegans] ref|NP_496816.1| Y48C3A.9 [Caenorhabditis elegans] 1.0E-56
blast T31593 hypothetical protein Y48C3A.k - Caenorhabditis elegans 7.0E-51
blast CAB55107 Hypothetical protein Y48C3A.8 [Caenorhabditis elegans] ref|NP_496815.1| Y48C3A.8 [Caenorhabditis elegans] 1.0E-35
blast CAE73362 Hypothetical protein CBG20796 [Caenorhabditis briggsae] 2.0E-23
Protein Domains
Database ID Description E-Value
Pfam IPR007591 EMBL-EBI Single-stranded DNA-binding protein, SSDP 4.7E-16
Pfam IPR007591 EMBL-EBI Single-stranded DNA-binding protein, SSDP 6.2E-38
Sequence
Target Sequence 
>C. ELEGANS:183461_AT
taagtacgaatccggcggcgggactggccgctgcaaactccacaaaactttcggataagt
catttctactcgaatggtggctattattttgggatctttattcggcggcaccagaacgac
gggatgctggaggcgatccgttctcggcggaggctaaatatttccacgaggcgatgatcg
gaatgccaccaggaatgaatggacattttgctccaccaccaatgggaatggaaatgatgg
gtggtcatccaggagcatttggcggccgatttgcacccggacgaatgcctccaggcgcaa
tggcacctggaggtatgcctccaggtgccttcccaatgtttccaccggatccacgattac
aacgaatggcgccgaatcaaggaatgcgaatgccaccgccaccagttggacaaccattcc
ctggagctgttggaatgccgaggcccgttggtcccggagcaccgatggtcacatat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TAAGTACGAATCCGGCGGCGGGACT 102 183 155 Antisense
TTTGGGATCTTTATTCGGCGGCACC 236 667 242 Antisense
GCGGCACCAGAACGACGGGATGCTG 579 291 259 Antisense
GATCCGTTCTCGGCGGAGGCTAAAT 260 415 289 Antisense
TGAATGGACATTTTGCTCCACCACC 411 575 350 Antisense
GAGCATTTGGCGGCCGATTTGCACC 263 389 407 Antisense
TCCACCGGATCCACGATTACAACGA 408 587 495 Antisense
CAAGGAATGCGAATGCCACCGCCAC 617 183 532 Antisense
ACCAGTTGGACAACCATTCCCTGGA 73 85 555 Antisense
TGGAGCTGTTGGAATGCCGAGGCCC 686 547 576 Antisense
TCCCGGAGCACCGATGGTCACATAT 342 597 606 Antisense
Sequence Source Affymetrix Proprietary Database