[Home] | [Total List]

[173968_s_at] Zinc finger, C3HC4 type (RING finger)

Description AV187225 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C36A4.8 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV187225 /WB_GENE_ID=C36A4.8 /WP=CE20540 /CHR=3 /FEA=Genomic Cluster /DEF=Zinc finger, C3HC4 type (RING finger); Caenorhabditis elegans cDNA clone:yk509c12 : 5prime end, single read.
Cluster 6grp_high1_10_10 > 88      4grp_high_8_8 > 23      6grp_total > 88      4grp_total > 0      6grp_cgc > 59      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 74
1 2 3 4 range
A 108.9
(0.8)
P 		76.5
(-2.2)
M 		68.3
(-3)
A 		133.1
(3)
P 		65
B 78.4
(-3)
P 		82.8
(-2.1)
P 		107.1
(3)
P 		104.9
(2.5)
A 		29
C 126.4
(-1.8)
P 		122.6
(-3)
P 		141.8
(3)
P 		139.9
(2.4)
A 		19
avr 104.6
(-1) 		94
(-3) 		105.7
(-0.8) 		126
(3) 		32

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 219
1 2 3 4 5 6 range
A 30.3
(-3)
A 		97.9
(-0.9)
P 		139.2
(0.4)
P 		77.9
(-1.5)
P 		118.6
(-0.2)
P 		221.3
(3)
P 		191
B 122.8
(-1.8)
P 		122.5
(-1.8)
P 		152.6
(-0.7)
P 		92.4
(-3)
P 		173.2
(0.1)
P 		249.2
(3)
P 		157
C 104.5
(-2.3)
P 		111.8
(-2)
P 		90.3
(-3)
M 		126.9
(-1.3)
P 		218.7
(3)
P 		219.2
(3)
P 		129
avr 85.9
(-3) 		110.7
(-2) 		127.4
(-1.3) 		99.1
(-2.5) 		170.2
(0.5) 		229.9
(3) 		144
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 33
1 2 3 4 range
A 39.6
(3)
P 		16.6
(-3)
M 		17.9
(-2.7)
A 		19.5
(-2.2)
P 		23
B 25
(3)
P 		20.5
(-3)
P 		24.8
(2.7)
P 		22.4
(-0.5)
A 		5
C 41.8
(1.2)
P 		35.2
(-0.3)
P 		49.4
(3)
P 		23.6
(-3)
A 		26
avr 35.5
(3) 		24.1
(-2) 		30.7
(0.9) 		21.8
(-3) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 87
1 2 3 4 5 6 range
A 5.6
(-3)
A 		34.8
(0.6)
P 		30.3
(0.1)
P 		19.8
(-1.2)
P 		35.8
(0.8)
P 		53.9
(3)
P 		48
B 42.7
(-1.4)
P 		40.8
(-1.6)
P 		37.1
(-1.9)
P 		24.5
(-3)
P 		70.4
(1)
P 		92.9
(3)
P 		68
C 38.7
(-1.1)
P 		34.1
(-1.7)
P 		23
(-3)
M 		25.5
(-2.7)
P 		70.8
(2.7)
P 		73.4
(3)
P 		50
avr 29
(-2.3) 		36.6
(-1.4) 		30.1
(-2.2) 		23.3
(-3) 		59
(1.3) 		73.4
(3) 		50
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173968_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23910
Sequence Type Exemplar sequence
Representative Public ID AV187225 NCBI
Target Description AV187225 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C36A4.8 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV187225 /WB_GENE_ID=C36A4.8 /WP=CE20540 /CHR=3 /FEA=Genomic Cluster /DEF=Zinc finger, C3HC4 type (RING finger); Caenorhabditis elegans cDNA clone:yk509c12 : 5prime 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_065379(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065379 NCBI Caenorhabditis elegans BRCa homolog (tumor suppressor gene Brca1) family member (brc-1) (brc-1) mRNA, complete cds. 9/11 None
C36A4.8 ENSEMBL cdna:known chromosome:CEL140:III:3853121:3862935:-1 gene:C36A4.8 9/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000028397 5/11 Cross Hyb Matching Probes None
SNAP00000028398 3/11 Cross Hyb Matching Probes None
GENEFINDER00000028402 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:3853131-3862936(-) 89.33 100.0
Public Domain and Genome References
Gene Title Zinc finger, C3HC4 type (RING finger)
Gene Symbol brc-1
Ensembl C36A4.8
Entrez Gene 175499 Entrez gene
SwissProt Q93335 EMBL-EBI
WormBase CE31438 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 CAA91275 Hypothetical protein C36A4.8 [Caenorhabditis elegans] ref|NP_497780.2| BRCa homolog (tumor suppressor gene Brca1) family member (brc-1) [Caenorhabditis elegans] 0.0
blast CAE60090 Hypothetical protein CBG03614 [Caenorhabditis briggsae] 1.0E-107
blast AAB92050 Hypothetical protein F42A6.5 [Caenorhabditis elegans] ref|NP_500323.1| F42A6.5 [Caenorhabditis elegans] 3.0E-63
Protein Domains
Database ID Description E-Value
Pfam IPR001357 EMBL-EBI BRCT 0.23
Pfam IPR001357 EMBL-EBI BRCT 3.0E-5
Pfam IPR001841 EMBL-EBI Zn-finger, RING 3.3E-11
Sequence
Target Sequence 
>C. ELEGANS:173968_S_AT
gatgatctggcaaatgttacctgtgctacaagtgtaagaaatataggaaaatcattgtgt
gcagaatatatcaggggtgtgcggcaaatttgccgaatttgtcgtttgccgagctcggca
aatttcaaaaaagttgatttgccgaatttgccgagctcggcaaatttcgaaatttgccgc
acacgtcaaaaatttgacagtacaatttcgactaaaactactgattttttcgccaaaaat
tcgcaactaatcgagcttgtccaacaatgcggaggagaaattctgagttgctacgagaat
ctgtcacctgaaaaactctacataatcttctcaaaacactcaaaagcaattgaagaatca
aaaaatatcgagaatctgtataaatgtgatgtggtgacaatggaatgggtattggacagt
atcagtgaatatttaattctacccactcaaccttacaaagctgtcgattcgataggctgc
ctgcaggatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGATCTGGCAAATGTTACCTGTG 478 409 1040 Antisense
GGCAAATGTTACCTGTGCTACAAGT 285 535 1048 Antisense
GTTACCTGTGCTACAAGTGTAAGAA 597 445 1055 Antisense
GGAAAATCATTGTGTGCAGAATATA 75 529 1085 Antisense
CAGAATATATCAGGGGTGTGCGGCA 435 203 1101 Antisense
TCGACTAAAACTACTGATTTTTTCG 650 599 1247 Antisense
GAATATTTAATTCTACCCACTCAAC 559 321 1466 Antisense
TACCCACTCAACCTTACAAAGCTGT 391 645 1479 Antisense
CCACTCAACCTTACAAAGCTGTCGA 192 273 1482 Antisense
AAGCTGTCGATTCGATAGGCTGCCT 2 151 1497 Antisense
GATTCGATAGGCTGCCTGCAGGATT 194 433 1505 Antisense
Sequence Source Affymetrix Proprietary Database