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[173186_s_at] Zinc finger, C3HC4 type (RING finger)

Description AV181307_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV181307 /DEF=Caenorhabditis elegans cDNA clone:yk618f4 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 95      6grp_high1_10_10 > 58      4grp_highest_8_8 > 46      4grp_high_8_8 > 10      6grp_highest_nonorm > 81      6grp_total > 69      4grp_total > 22      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 141
1 2 3 4 range
A 242.4
(1.9)
P 		150.1
(-3)
P 		192.2
(-0.8)
P 		264.2
(3)
P 		114
B 231.7
(2)
P 		147.3
(-2.4)
P 		135.6
(-3)
P 		251.8
(3)
P 		116
C 273.5
(2.9)
P 		265.5
(2.4)
P 		170.8
(-3)
P 		276.1
(3)
P 		105
avr 249.2
(2.1) 		187.6
(-1.7) 		166.2
(-3) 		264
(3) 		98

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 144
1 2 3 4 5 6 range
A 221.5
(-0.6)
P 		237.4
(0.6)
P 		222.5
(-0.5)
P 		187.8
(-3)
P 		225.2
(-0.3)
P 		271.3
(3)
P 		84
B 294.8
(1.5)
P 		242.5
(-0.9)
P 		256.4
(-0.3)
P 		195.4
(-3)
P 		284.8
(1)
P 		328.7
(3)
P 		133
C 283.9
(0.5)
P 		293.4
(1)
P 		230.3
(-2.3)
P 		216.2
(-3)
P 		261
(-0.7)
P 		332.1
(3)
P 		116
avr 266.7
(0.6) 		257.8
(0.1) 		236.4
(-1) 		199.8
(-3) 		257
(0.1) 		310.7
(3) 		111
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 59
1 2 3 4 range
A 88.2
(3)
P 		32.6
(-3)
P 		50.3
(-1.1)
P 		38.7
(-2.3)
P 		56
B 73.9
(3)
P 		36.4
(-2.3)
P 		31.4
(-3)
P 		53.6
(0.1)
P 		43
C 90.5
(3)
P 		76.3
(1.1)
P 		59.5
(-1.2)
P 		46.5
(-3)
P 		44
avr 84.2
(3) 		48.4
(-2.7) 		47.1
(-2.9) 		46.3
(-3) 		38

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 82
1 2 3 4 5 6 range
A 40.8
(-3)
P 		84.4
(3)
P 		48.5
(-1.9)
P 		47.6
(-2.1)
P 		67.9
(0.7)
P 		66
(0.5)
P 		44
B 102.6
(1.3)
P 		80.7
(-0.6)
P 		62.3
(-2.1)
P 		51.8
(-3)
P 		115.7
(2.4)
P 		122.6
(3)
P 		71
C 105.2
(2.5)
P 		89.5
(1.1)
P 		58.6
(-1.7)
P 		43.5
(-3)
P 		84.5
(0.6)
P 		111.2
(3)
P 		68
avr 82.9
(1) 		84.9
(1.3) 		56.5
(-2) 		47.6
(-3) 		89.4
(1.8) 		99.9
(3) 		52
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173186_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26725
Sequence Type Exemplar sequence
Representative Public ID AV181307 NCBI
Target Description AV181307_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=AV181307 /DEF=Caenorhabditis elegans cDNA clone:yk618f4 : 3prime end, single read.
Cluster Evidence This cluster is supported by a EST Transcript.
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_064359(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064359 NCBI Caenorhabditis elegans Y38F1A.2 (Y38F1A.2) mRNA, complete cds. 11/11 A 
SNAP00000020277 ENSEMBL cdna:SNAP chromosome:CEL140:II:12954877:12959032:1 10/11 None
GENEFINDER00000020291 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:12954877:12957779:1 11/11 None
Y38F1A.2 ENSEMBL cdna:known chromosome:CEL140:II:12954877:12957902:1 gene:Y38F1A.2 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
chrII:12957501-12957803(+) 85.67 85.67
Public Domain and Genome References
Gene Title Zinc finger, C3HC4 type (RING finger)
Ensembl Y38F1A.2
Entrez Gene 174939 Entrez gene
SwissProt Q9XWM0 EMBL-EBI
WormBase CE21607 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:261938_AT zinc finger (C3HC4-type RING finger) family protein at
CANINE:1604806_AT similar to ring finger protein 170 cfa
CANINE_2:CFAAFFX.9056.1.S1_S_AT similar to ring finger protein 170 cfa
CANINE_2:CFAAFFX.9057.1.S1_AT similar to ring finger protein 170 cfa
CHICKEN:GGA.10132.1.S1_AT similar to hypothetical protein DKFZp564A022 gga
HG-U133_PLUS_2:220985_S_AT ring finger protein 170 hs
HG-U133A:220985_S_AT ring finger protein 170 hs
HG-U133A_2:220985_S_AT ring finger protein 170 hs
U133_X3P:G13569925_3P_S_AT ring finger protein 170 hs
U133_X3P:HS2.189921.1.S1_3P_AT ring finger protein 170 hs
U133_X3P:HS2.189921.1.S1_3P_S_AT ring finger protein 170 hs
HG-U133_PLUS_2:1554312_AT ring finger protein 170 hs
HG-U95D:72713_AT ring finger protein 170 hs
HG-U95E:84608_AT ring finger protein 170 hs
HG-U95D:87512_AT ring finger protein 170 hs
HG-U133_PLUS_2:226104_AT Ring finger protein 170 hs
HG-U133B:226104_AT Ring finger protein 170 hs
U133_X3P:HS.22629.0.A1_3P_AT Ring finger protein 170 hs
HG-U95B:49530_AT Ring finger protein 170 hs
HU35KSUBB:RC_N63070_AT Ring finger protein 170 hs
HU35KSUBC:RC_C21022_AT Ring finger protein 170 hs
MOE430B:1431195_AT ring finger protein 170 mm
MOUSE430_2:1431195_AT ring finger protein 170 mm
MOE430B:1437207_AT ring finger protein 170 mm
MOUSE430_2:1437207_AT ring finger protein 170 mm
MOE430B:1460131_AT Ring finger protein 170, mRNA (cDNA clone IMAGE:5027688) mm
MOUSE430_2:1460131_AT Ring finger protein 170, mRNA (cDNA clone IMAGE:5027688) mm
MU19KSUBC:TC35413_AT Ring finger protein 170, mRNA (cDNA clone IMAGE:5027688) mm
Protein Similarities
Method ID Description E-Value
blast CAA21635 Hypothetical protein Y38F1A.2 [Caenorhabditis elegans] ref|NP_496760.1| Y38F1A.2 [Caenorhabditis elegans] 1.0E-151
blast CAA21635 Hypothetical protein Y38F1A.2 [Caenorhabditis elegans] ref|NP_496760.1| Y38F1A.2 [Caenorhabditis elegans] 1.0E-146
blast CAA21635 Hypothetical protein Y38F1A.2 [Caenorhabditis elegans] ref|NP_496760.1| Y38F1A.2 [Caenorhabditis elegans] 1.0E-117
blast CAE59401 Hypothetical protein CBG02764 [Caenorhabditis briggsae] 1.0E-75
blast CAE59401 Hypothetical protein CBG02764 [Caenorhabditis briggsae] 7.0E-75
blast CAE59401 Hypothetical protein CBG02764 [Caenorhabditis briggsae] 1.0E-49
blast AAH69061 Zgc:65779 protein [Danio rerio] gb|AAH56330.1| Hypothetical protein LOC406612 [Danio rerio] ref|NP_999915.1| hypothetical protein LOC406612 [Danio rerio] 1.0E-25
Protein Domains
Database ID Description E-Value
Pfam IPR001841 EMBL-EBI Zn-finger, RING 1.6E-9
Pfam IPR001841 EMBL-EBI Zn-finger, RING 1.6E-9
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_496760.1 3 46-64,216-238,248-270
Y38F1A.2 3 46-64,216-238,248-270
SNAP00000020277 3 46-64,177-199,209-231
GENEFINDER00000020291 3 83-101,253-275,285-307
Sequence
Target Sequence 
>C. ELEGANS:173186_S_AT
tccgcaactttttcaacaatgacatcttcacattggtctaccaagttcgcatcggattcg
tgttcatctgtgtgatcacctacttcttgctaccaagtgatatggttcctgagagcattt
acggaattattgggttcctcgacgactgtatcattgggattctggtgtttggagccatgt
tccggtggctcagagagtatatggcggatcgaggtttagcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCCGCAACTTTTTCAACAATGACAT 516 593 13 Antisense
GACATCTTCACATTGGTCTACCAAG 262 369 33 Antisense
GGTCTACCAAGTTCGCATCGGATTC 466 501 47 Antisense
GCATCGGATTCGTGTTCATCTGTGT 559 309 61 Antisense
ATCTGTGTGATCACCTACTTCTTGC 664 33 78 Antisense
GATATGGTTCCTGAGAGCATTTACG 662 425 111 Antisense
ATTATTGGGTTCCTCGACGACTGTA 515 11 138 Antisense
GACGACTGTATCATTGGGATTCTGG 543 379 153 Antisense
TCTGGTGTTTGGAGCCATGTTCCGG 272 607 173 Antisense
CATGTTCCGGTGGCTCAGAGAGTAT 680 209 188 Antisense
GTATATGGCGGATCGAGGTTTAGCG 35 445 209 Antisense
Sequence Source Affymetrix Proprietary Database