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[172941_x_at] single-stranded DNA binding protein P9

Description T13F2.2 /REP_DB=WormBase Gene ID /WP=CE13621 /TR=Q94045 /GB=CAB03353.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=single-stranded DNA binding protein P9
Cluster 6grp_highest_10_10 > 77      6grp_high1_10_10 > 86      4grp_highest_8_8 > 06      4grp_high_8_8 > 22      6grp_highest_nonorm > 83      6grp_total > 77      4grp_total > 16      6grp_highest_sub > Da      6grp_high1_sub > In      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 488
1 2 3 4 range
A 372.9
(-3)
P 		534.5
(-0.5)
P 		474
(-1.4)
P 		763.4
(3)
P 		391
B 433.5
(-3)
P 		591.8
(-0.8)
P 		581.3
(-0.9)
P 		861
(3)
P 		428
C 415.3
(-3)
P 		599.3
(-0.4)
P 		580.4
(-0.7)
P 		843.1
(3)
P 		428
avr 407.2
(-3) 		575.2
(-0.6) 		545.2
(-1) 		822.5
(3) 		415

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 568
1 2 3 4 5 6 range
A 295.9
(-3)
P 		350.2
(-2)
P 		604.6
(2.9)
P 		407.3
(-0.9)
P 		438.7
(-0.3)
P 		610.2
(3)
P 		314
B 447
(-2.7)
P 		430.1
(-3)
P 		460.2
(-2.4)
P 		492.9
(-1.7)
P 		542.2
(-0.8)
P 		730.1
(3)
P 		300
C 353.3
(-2.9)
P 		450.3
(-1.7)
P 		340.7
(-3)
P 		418.9
(-2.1)
P 		491.3
(-1.3)
P 		864.3
(3)
P 		524
avr 365.4
(-3) 		410.2
(-2.3) 		468.5
(-1.3) 		439.7
(-1.8) 		490.7
(-1) 		734.9
(3) 		370
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 91
1 2 3 4 range
A 135.8
(3)
P 		116
(-1.9)
P 		123.9
(0)
P 		111.7
(-3)
P 		24
B 138.2
(-2.6)
P 		146.2
(-1.6)
P 		134.7
(-3)
P 		183.5
(3)
P 		49
C 137.5
(-3)
P 		172.3
(0.2)
P 		202.3
(3)
P 		142.2
(-2.6)
P 		65
avr 137.2
(-3) 		144.8
(-0.2) 		153.6
(3) 		145.8
(0.1) 		16

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 235
1 2 3 4 5 6 range
A 54.6
(-3)
P 		124.6
(1.5)
P 		131.7
(1.9)
P 		103.3
(0.1)
P 		132.4
(2)
P 		148.6
(3)
P 		94
B 155.5
(-1.4)
P 		143.2
(-1.8)
P 		111.7
(-3)
P 		130.6
(-2.3)
P 		220.3
(1.1)
P 		272.3
(3)
P 		161
C 131
(-1.6)
P 		137.4
(-1.4)
P 		86.7
(-2.9)
P 		84.2
(-3)
P 		159
(-0.8)
P 		289.3
(3)
P 		205
avr 113.7
(-2.6) 		135.1
(-1.7) 		110
(-2.8) 		106
(-3) 		170.6
(-0) 		236.7
(3) 		131
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172941_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9829
Sequence Type Exemplar sequence
Representative Public ID T13F2.2 NCBI
Target Description T13F2.2 /REP_DB=WormBase Gene ID /WP=CE13621 /TR=Q94045 /GB=CAB03353.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=single-stranded DNA binding protein P9
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_069349(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069349 NCBI Caenorhabditis elegans T13F2.2 (T13F2.2) mRNA, complete cds. 11/11 None
SNAP00000043481 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9796818:9797326:-1 11/11 None
GENEFINDER00000043488 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9796818:9797326:-1 11/11 None
T13F2.2.2 ENSEMBL cdna:known chromosome:CEL140:IV:9796671:9797328:-1 gene:T13F2.2 11/11 None
T13F2.2.1 ENSEMBL cdna:known chromosome:CEL140:IV:9796703:9797330:-1 gene:T13F2.2 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
chrIV:9796823-9797332(-) 100.0 100.0
Public Domain and Genome References
Gene Title single-stranded DNA binding protein P9
Ensembl T13F2.2
Entrez Gene 188475 Entrez gene
SwissProt Q94045 EMBL-EBI
WormBase CE13621 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3713 transcription coactivator activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB03353 Hypothetical protein T13F2.2 [Caenorhabditis elegans] ref|NP_501750.1| T13F2.2 [Caenorhabditis elegans] sp|Q94045|TCP4_CAEEL Putative RNA polymerase II transcriptional coactivator 3.0E-36
blast CAE59988 Hypothetical protein CBG03481 [Caenorhabditis briggsae] 2.0E-33
Protein Domains
Database ID Description E-Value
Pfam IPR003173 EMBL-EBI Transcriptional coactivator p15 5.6E-52
Sequence
Target Sequence 
>C. ELEGANS:172941_X_AT
tcgtcctcctcttcatctgaagatgaacttgaaaagaaagtgactaaagaacagaagaag
aaggaaaccaagtcaaagaaaaggcagtcagaagccgttgaagaagagaaacaagaagta
aagaaagctaagaatgaggaggaagtgtctggacgattgaaagacagcgatggaaatgag
atgtttgagatcggaaatcttagatacgcgaccgtcagcaagttcaagggaaaggaatat
gtcaacatcagagaatattacattgacagagattctcagaaaatgatgccaagtcgcaaa
ggaatctcgttgagcaaagcacaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCGTCCTCCTCTTCATCTGAAGATG 600 605 16 Antisense
AAAGGCAGTCAGAAGCCGTTGAAGA 107 121 95 Antisense
GAATGAGGAGGAAGTGTCTGGACGA 625 331 147 Antisense
TGGACGATTGAAAGACAGCGATGGA 533 547 165 Antisense
GAGATGTTTGAGATCGGAAATCTTA 696 395 193 Antisense
GGAAATCTTAGATACGCGACCGTCA 387 527 208 Antisense
GATACGCGACCGTCAGCAAGTTCAA 674 423 218 Antisense
GCGACCGTCAGCAAGTTCAAGGGAA 54 289 223 Antisense
TATTACATTGACAGAGATTCTCAGA 258 663 271 Antisense
GATGCCAAGTCGCAAAGGAATCTCG 565 413 300 Antisense
AGGAATCTCGTTGAGCAAAGCACAA 550 53 315 Antisense
Sequence Source Affymetrix Proprietary Database