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[188876_s_at] sepB domain

Description F17C11.10 /REP_DB=WormBase Gene ID /WP=CE05657 /TR=Q19520 /GB=CAA96632.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=sepB domain
Cluster 6grp_highest_10_10 > 77      6grp_high1_10_10 > 77      4grp_highest_8_8 > 17      4grp_high_8_8 > 60      6grp_highest_nonorm > 93      6grp_total > 77      4grp_total > 59      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 282
1 2 3 4 range
A 263.3
(0.7)
P 		313.7
(2.1)
P 		345.2
(3)
P 		135.2
(-3)
P 		210
B 237.8
(-0.4)
P 		298
(0.9)
P 		397.9
(3)
P 		116.2
(-3)
P 		282
C 298.5
(2.5)
P 		243
(0.4)
P 		312.1
(3)
P 		155
(-3)
P 		157
avr 266.5
(0.6) 		284.9
(1.1) 		351.7
(3) 		135.5
(-3) 		216

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 822
1 2 3 4 5 6 range
A 268.5
(-2.9)
P 		326
(-2.5)
P 		258.3
(-3)
P 		415.5
(-1.8)
P 		410.1
(-1.8)
P 		1019.8
(3)
P 		762
B 321.5
(-2.5)
P 		261.2
(-3)
P 		292
(-2.7)
P 		334.2
(-2.4)
P 		421.4
(-1.6)
P 		960.6
(3)
P 		699
C 262.6
(-3)
P 		283.1
(-2.8)
P 		270.6
(-2.9)
P 		423.4
(-1.8)
P 		391.5
(-2.1)
P 		1080.3
(3)
P 		818
avr 284.2
(-2.9) 		290.1
(-2.9) 		273.6
(-3) 		391
(-2.1) 		407.7
(-1.9) 		1020.2
(3) 		747
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 89
1 2 3 4 range
A 95.9
(3)
P 		68.1
(0.8)
P 		90.2
(2.6)
P 		19.8
(-3)
P 		76
B 75.8
(1.5)
P 		73.6
(1.3)
P 		92.2
(3)
P 		24.8
(-3)
P 		67
C 98.8
(2.3)
P 		69.9
(0.2)
P 		108.8
(3)
P 		26.1
(-3)
P 		83
avr 90.2
(2.4) 		70.5
(0.8) 		97.1
(3) 		23.6
(-3) 		74

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 312
1 2 3 4 5 6 range
A 49.5
(-3)
P 		116
(-1)
P 		56.2
(-2.8)
P 		105.4
(-1.3)
P 		123.8
(-0.8)
P 		248.3
(3)
P 		199
B 111.9
(-2.1)
P 		87
(-2.7)
P 		70.9
(-3)
P 		88.5
(-2.6)
P 		171.2
(-0.9)
P 		358.2
(3)
P 		287
C 97.3
(-2.4)
P 		86.4
(-2.6)
P 		68.9
(-3)
P 		85.2
(-2.7)
P 		126.7
(-1.8)
P 		361.6
(3)
P 		293
avr 86.2
(-2.5) 		96.5
(-2.3) 		65.3
(-3) 		93
(-2.4) 		140.6
(-1.2) 		322.7
(3) 		257
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188876_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13085
Sequence Type Exemplar sequence
Representative Public ID F17C11.10 NCBI
Target Description F17C11.10 /REP_DB=WormBase Gene ID /WP=CE05657 /TR=Q19520 /GB=CAA96632.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=sepB 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_073398(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073398 NCBI Caenorhabditis elegans F17C11.10 (F17C11.10) mRNA, complete cds. 11/11 None
SNAP00000033901 ENSEMBL cdna:SNAP chromosome:CEL140:V:10964480:10968126:-1 11/11 None
GENEFINDER00000033907 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:10964480:10968126:-1 11/11 None
F17C11.10 ENSEMBL cdna:known chromosome:CEL140:V:10964431:10968126:-1 gene:F17C11.10 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
chrV:10964479-10968126(-) 100.0 100.0
Public Domain and Genome References
Gene Title sepB domain
Ensembl F17C11.10
Entrez Gene 179521 Entrez gene
SwissProt Q19520 EMBL-EBI
WormBase CE05657 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:252785_AT transducin family protein / WD-40 repeat family protein at
CANINE_2:CFAAFFX.23062.1.S1_AT similar to WD repeat and HMG-box DNA binding protein 1 (Acidic nucleoplasmic DNA-binding protein 1) (And-1) cfa
DROSOPHILA_2:1623830_AT dm
DROSGENOME1:141540_AT dm
CHICKEN:GGAAFFX.7733.1.S1_S_AT similar to RIKEN cDNA D630024B06 gga
HG-U133_PLUS_2:204728_S_AT WD repeat and HMG-box DNA binding protein 1 hs
HG-U133A_2:204728_S_AT WD repeat and HMG-box DNA binding protein 1 hs
HG-U133A:204728_S_AT WD repeat and HMG-box DNA binding protein 1 hs
HU35KSUBB:RC_AA157007_AT WD repeat and HMG-box DNA binding protein 1 hs
HG-U133_PLUS_2:216228_S_AT WD repeat and HMG-box DNA binding protein 1 hs
HG-U133A_2:216228_S_AT WD repeat and HMG-box DNA binding protein 1 hs
HG-U133A:216228_S_AT WD repeat and HMG-box DNA binding protein 1 hs
U133_X3P:G5901891_3P_A_AT WD repeat and HMG-box DNA binding protein 1 hs
U133_X3P:HS.72160.1.S1_3P_A_AT WD repeat and HMG-box DNA binding protein 1 hs
U133_X3P:HS.72160.0.S2_3P_AT WD repeat and HMG-box DNA binding protein 1 hs
HG-U133A_2:204727_AT WD repeat and HMG-box DNA binding protein 1 hs
HG-U133_PLUS_2:204727_AT WD repeat and HMG-box DNA binding protein 1 hs
HG-U133A:204727_AT WD repeat and HMG-box DNA binding protein 1 hs
HG-U95AV2:40355_AT WD repeat and HMG-box DNA binding protein 1 hs
HG-U95D:77471_AT WD repeat and HMG-box DNA binding protein 1 hs
HG-U95D:78582_R_AT WD repeat and HMG-box DNA binding protein 1 hs
HG-U95D:78585_R_AT WD repeat and HMG-box DNA binding protein 1 hs
MG-U74AV2:96625_AT WD repeat and HMG-box DNA binding protein 1 mm
MU11KSUBA:AA177744_AT WD repeat and HMG-box DNA binding protein 1 mm
MOE430A:1435114_AT WD repeat and HMG-box DNA binding protein 1 mm
MOUSE430A_2:1435114_AT WD repeat and HMG-box DNA binding protein 1 mm
MOUSE430_2:1435114_AT WD repeat and HMG-box DNA binding protein 1 mm
MU19KSUBA:TC14504_S_AT WD repeat and HMG-box DNA binding protein 1, mRNA (cDNA clone MGC:59385 IMAGE:6328626) mm
RAE230B:1391201_AT WD repeat and HMG-box DNA binding protein 1 (predicted) rn
RAT230_2:1391201_AT WD repeat and HMG-box DNA binding protein 1 (predicted) rn
RG-U34B:RC_AI012084_AT WD repeat and HMG-box DNA binding protein 1 (predicted) rn
YEAST_2:1771449_AT Chromatin-associated protein, required for sister chromatid cohesion; interacts with DNA polymerase alpha (Pol1p) and may link DNA synthesis to sister chromatid cohesion Sc
Protein Similarities
Method ID Description E-Value
blast CAA96632 Hypothetical protein F17C11.10 [Caenorhabditis elegans] ref|NP_505799.1| F17C11.10 [Caenorhabditis elegans] 0.0
blast CAE75136 Hypothetical protein CBG23065 [Caenorhabditis briggsae] 0.0
blast XP_547823 PREDICTED: similar to WD repeat and HMG-box DNA binding protein 1 (Acidic nucleoplasmic DNA-binding protein 1) (And-1) [Canis familiaris] 3.0E-58
Protein Domains
Database ID Description E-Value
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.17
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.0062
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.53
Sequence
Target Sequence 
>C. ELEGANS:188876_S_AT
cacagaaggctcctagcccaactgttgaatcattgaatgaagatcaaacgaatgatggag
acgaatcttcttctcgttataatctaaatatggacgtctctatgatgtctcaacctgttc
aaccattggaacggcttgcaaaaaatccgtttgccaaaggttctgatacttctaaaattg
attcagctgcttcttcgcaggcatcattatctatcttcgatcaacttgaaagcacatcaa
atgaccaaaggaaacgggctcgcgaacctgagacagtcacaagcacgaatcaaactgttc
gtaaacaggccaaacttaatttcggtggaactcagcagtctgatgagaagaaaaagaaaa
cgtcatcaaaaaattcggatcttggtcagaaaggaaaagaaaatgaagcagaaacacttt
gtccaatcgaagagcccgcgaaaaaaagtgtgagtccgtacgagatgtggctgacggagt
cgaaaagcagccttgagtttgactttgatggcgataatgctgatttttcaaagttctgca
ttcaaacgttccgcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CACAGAAGGCTCCTAGCCCAACTGT 263 195 2699 Antisense
GAATCTTCTTCTCGTTATAATCTAA 53 329 2761 Antisense
GGACGTCTCTATGATGTCTCAACCT 208 525 2790 Antisense
GTCTCAACCTGTTCAACCATTGGAA 412 469 2805 Antisense
TTGATTCAGCTGCTTCTTCGCAGGC 267 703 2876 Antisense
CGCAGGCATCATTATCTATCTTCGA 696 253 2894 Antisense
GCTCGCGAACCTGAGACAGTCACAA 486 297 2956 Antisense
ATTTCGGTGGAACTCAGCAGTCTGA 641 15 3017 Antisense
CACTTTGTCCAATCGAAGAGCCCGC 377 195 3113 Antisense
GTGAGTCCGTACGAGATGTGGCTGA 430 483 3148 Antisense
AAGTTCTGCATTCAAACGTTCCGCG 445 155 3229 Antisense
Sequence Source Affymetrix Proprietary Database