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[174690_at] BRCA1 C Terminus (BRCT) domain

Description CEK031F7R_rc /REP_DB=TREMBL Accession /GB=D33484 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk31f7 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 85      6grp_high1_10_10 > 68      4grp_highest_8_8 > 53      4grp_high_8_8 > 09      6grp_highest_nonorm > 88      6grp_total > 69      4grp_total > 23      6grp_highest_sub > Cu      6grp_cgc > 29      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 753
1 2 3 4 range
A 1506.2
(3)
P 		1162.8
(-0.9)
P 		983.5
(-3)
P 		1323.2
(0.9)
P 		523
B 1691.9
(2.6)
P 		1100.4
(-3)
P 		1183.9
(-2.2)
P 		1736
(3)
P 		636
C 1617.4
(3)
P 		1021.9
(-3)
P 		1091.4
(-2.3)
P 		1360
(0.4)
P 		596
avr 1605.2
(3) 		1095
(-2.9) 		1086.3
(-3) 		1473.1
(1.5) 		519

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1338
1 2 3 4 5 6 range
A 1276.9
(-0.3)
P 		1379.2
(0.4)
P 		886.6
(-3)
P 		890.7
(-3)
P 		1160.9
(-1.1)
P 		1766.8
(3)
P 		880
B 1096.7
(-1.6)
P 		1389.6
(0.3)
P 		879.1
(-3)
P 		1072.6
(-1.7)
P 		1185.4
(-1)
P 		1793.7
(3)
P 		915
C 1246.1
(-1.5)
P 		1356.4
(-1)
P 		1146.3
(-1.9)
P 		914
(-3)
P 		1090
(-2.2)
P 		2216.6
(3)
P 		1303
avr 1206.6
(-1.5) 		1375.1
(-0.4) 		970.7
(-2.9) 		959.1
(-3) 		1145.4
(-1.8) 		1925.7
(3) 		967
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 355
1 2 3 4 range
A 548.4
(3)
P 		252.4
(-2)
P 		257.1
(-1.9)
P 		193.7
(-3)
P 		355
B 539.5
(3)
P 		271.8
(-3)
P 		274.3
(-2.9)
P 		369.9
(-0.8)
P 		268
C 535.4
(3)
P 		293.8
(-1.7)
P 		380.4
(-0)
P 		229.3
(-3)
P 		306
avr 541.1
(3) 		272.7
(-2.8) 		303.9
(-2.1) 		264.3
(-3) 		277

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 558
1 2 3 4 5 6 range
A 235.4
(-2.1)
P 		490.5
(3)
P 		193.1
(-3)
P 		225.9
(-2.3)
P 		350.3
(0.2)
P 		430.2
(1.8)
P 		297
B 381.6
(-0.8)
P 		462.5
(0.3)
P 		213.5
(-3)
P 		284.1
(-2.1)
P 		481.6
(0.5)
P 		668.9
(3)
P 		455
C 461.9
(-0)
P 		413.9
(-0.5)
P 		291.8
(-1.8)
P 		183.8
(-3)
P 		352.7
(-1.2)
P 		742
(3)
P 		558
avr 359.6
(-1) 		455.6
(0.5) 		232.8
(-3) 		231.3
(-3) 		394.9
(-0.4) 		613.7
(3) 		382
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174690_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20193
Sequence Type Exemplar sequence
Representative Public ID CEK031F7R NCBI
Target Description CEK031F7R_rc /REP_DB=TREMBL Accession /GB=D33484 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk31f7 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_001026439(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026439 NCBI Caenorhabditis elegans T05F1.6 (hsr-9) mRNA, complete cds. 11/11 None
T05F1.6 ENSEMBL cdna:known chromosome:CEL140:I:9634384:9639293:1 gene:T05F1.6 11/11 A 
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
chrI:9638473-9638877(+) 100.0 100.0
Public Domain and Genome References
Gene Title BRCA1 C Terminus (BRCT) domain
Gene Symbol hsr-9
Ensembl T05F1.6
Entrez Gene 3565010 Entrez gene
SwissProt Q7JKP6 EMBL-EBI
WormBase CE36405 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAF31485 Hypothetical protein T05F1.6 [Caenorhabditis elegans] ref|NP_001021610.1| T05F1.6 [Caenorhabditis elegans] 0.0
blast T24541 hypothetical protein T05F1.6a - Caenorhabditis elegans 0.0
blast CAE60154 Hypothetical protein CBG03706 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001357 EMBL-EBI BRCT 4.2E-5
Pfam IPR001357 EMBL-EBI BRCT 2.9
Sequence
Target Sequence 
>C. ELEGANS:174690_AT
tgctccatccgctgaaatatcgtcgatctcttactcgaaaatttacccgctcagtgtgct
ggtcaacaagcggtgacattgtatgcgtattcattaaccattttttgtgaatttttgagc
tcttcccaatttattattatagaactgcattttctaagcccctgttttgaagctcttcca
tcttttttaaatcacgatcatcattcctttcccagttacttctgcaacgtatttattata
atttattcgaaagcttctgagaactttttaactattcctttttgcatcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCTCCATCCGCTGAAATATCGTCG 524 581 50 Antisense
AAATATCGTCGATCTCTTACTCGAA 166 115 64 Antisense
CTTACTCGAAAATTTACCCGCTCAG 119 213 79 Antisense
CCGCTCAGTGTGCTGGTCAACAAGC 176 263 96 Antisense
AAGCGGTGACATTGTATGCGTATTC 34 151 117 Antisense
TGAGCTCTTCCCAATTTATTATTAT 48 569 165 Antisense
TAGAACTGCATTTTCTAAGCCCCTG 300 651 189 Antisense
CTAAGCCCCTGTTTTGAAGCTCTTC 80 227 203 Antisense
GAAGCTCTTCCATCTTTTTTAAATC 82 337 218 Antisense
CTTTCCCAGTTACTTCTGCAACGTA 390 221 256 Antisense
TTTTAACTATTCCTTTTTGCATCAA 72 677 315 Antisense
Sequence Source Affymetrix Proprietary Database