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[192896_at] Zinc finger, C3HC4 type (RING finger)

Description F08G12.5 /REP_DB=WormBase Gene ID /WP=CE03170 /TR=Q19214 /GB=CAA91457.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Zinc finger, C3HC4 type (RING finger)
Cluster 6grp_high1_10_10 > 86      4grp_high_8_8 > 06      6grp_total > 77      4grp_total > 02      6grp_high1_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1444
1 2 3 4 range
A 274.4
(-2.9)
P 		252.7
(-3)
M 		267.8
(-2.9)
P 		1640.4
(3)
P 		1388
B 234.2
(-3)
P 		306.8
(-2.5)
P 		261.9
(-2.8)
P 		1030.1
(3)
P 		796
C 234.4
(-3)
P 		280.3
(-2.8)
P 		227.2
(-3)
P 		1671.4
(3)
P 		1444
avr 247.7
(-3) 		279.9
(-2.8) 		252.3
(-3) 		1447.3
(3) 		1200

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 858
1 2 3 4 5 6 range
A 398.5
(-1.2)
M 		253.4
(-3)
P 		402.8
(-1.1)
P 		459.5
(-0.4)
P 		503.5
(0.2)
P 		726
(3)
P 		473
B 287.7
(-3)
M 		297.3
(-2.9)
P 		412.6
(-2.1)
P 		371.9
(-2.4)
P 		581.7
(-0.9)
P 		1111.1
(3)
P 		823
C 291.3
(-3)
P 		351.3
(-2.5)
P 		318.4
(-2.8)
P 		473.6
(-1.5)
P 		447.5
(-1.7)
P 		997
(3)
P 		706
avr 325.8
(-2.8) 		300.7
(-3) 		377.9
(-2.3) 		435
(-1.7) 		510.9
(-1) 		944.7
(3) 		644
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 227
1 2 3 4 range
A 99.9
(-1.5)
P 		54.9
(-3)
M 		70
(-2.5)
P 		240.1
(3)
P 		185
B 74.7
(-2.5)
P 		75.8
(-2.4)
P 		60.7
(-3)
P 		219.5
(3)
P 		159
C 77.6
(-3)
P 		80.6
(-2.9)
P 		79.2
(-3)
P 		281.8
(3)
P 		204
avr 84.1
(-2.5) 		70.4
(-3) 		70
(-3) 		247.1
(3) 		177

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 341
1 2 3 4 5 6 range
A 73.5
(-3)
M 		90.1
(-2)
P 		87.7
(-2.2)
P 		116.5
(-0.5)
P 		151.9
(1.6)
P 		176.7
(3)
P 		103
B 100.1
(-3)
M 		99
(-3)
P 		100.2
(-3)
P 		98.5
(-3)
P 		236.3
(-0.4)
P 		414.3
(3)
P 		316
C 108
(-2.4)
P 		107.2
(-2.4)
P 		81
(-3)
P 		95.2
(-2.7)
P 		144.8
(-1.5)
P 		333.8
(3)
P 		253
avr 93.9
(-2.9) 		98.8
(-2.7) 		89.6
(-3) 		103.4
(-2.6) 		177.7
(-0.6) 		308.3
(3) 		219
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192896_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17289
Sequence Type Exemplar sequence
Representative Public ID F08G12.5 NCBI
Target Description F08G12.5 /REP_DB=WormBase Gene ID /WP=CE03170 /TR=Q19214 /GB=CAA91457.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Zinc finger, C3HC4 type (RING finger)
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_077489(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077489 NCBI Caenorhabditis elegans F08G12.5 (F08G12.5) mRNA, complete cds. 9/11 None
SNAP00000008605 ENSEMBL cdna:SNAP chromosome:CEL140:X:11308827:11310170:-1 9/11 None
GENEFINDER00000008625 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:11308827:11310170:-1 9/11 None
F08G12.5 ENSEMBL cdna:known chromosome:CEL140:X:11308827:11310146:-1 gene:F08G12.5 9/11 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
chrX:11308826-11310146(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C3HC4 type (RING finger)
Ensembl F08G12.5
Entrez Gene 184211 Entrez gene
SwissProt Q19214 EMBL-EBI
WormBase CE37340 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA91457 Hypothetical protein F08G12.5 [Caenorhabditis elegans] ref|NP_509890.2| F08G12.5 [Caenorhabditis elegans] 1.0E-104
blast CAE70662 Hypothetical protein CBG17369 [Caenorhabditis briggsae] 9.0E-68
blast CAE73081 Hypothetical protein CBG20457 [Caenorhabditis briggsae] 2.0E-22
Protein Domains
Database ID Description E-Value
Pfam IPR001841 EMBL-EBI Zn-finger, RING 5.0E-9
Pfam IPR001841 EMBL-EBI Zn-finger, RING 5.0E-9
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509890.2 1 162-184
F08G12.5 1 162-184
SNAP00000008605 1 170-192
GENEFINDER00000008625 1 170-192
Sequence
Target Sequence 
>C. ELEGANS:192896_AT
ggtactgaaatccctagacgaggctgatgtatgcgtagttgatgtagaaacattacgatg
cgctgtctgtctcaacatatttcaaggaatccctcaaacgctgacatgcggtcattcatt
ctgtcatagatgcattgaagaagtggctcattcggaagtgatgaatgatacaagagaacc
aaaccgaaatgaactcttggtccgcagacttgtttctcgagaacatttcgggacaaagat
tttatggaatatgtattttcaaaaaacctcgtttcactgccccatttgccggaagcgtgt
cagcatgagcaaggttatccagaattatacactgaaaaacgtactggatagtattaacga
actatcgagagaggaggaaaaatcaagaagagcgtatgataatactttggatgcatcaaa
tgaacaactccgcgtcaaatgcattg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGTACTGAAATCCCTAGACGAGGCT 297 501 72 Antisense
GAGGCTGATGTATGCGTAGTTGATG 607 405 91 Antisense
AACATTACGATGCGCTGTCTGTCTC 393 137 120 Antisense
GCGCTGTCTGTCTCAACATATTTCA 667 287 131 Antisense
GAATCCCTCAAACGCTGACATGCGG 469 329 158 Antisense
ACATGCGGTCATTCATTCTGTCATA 64 107 175 Antisense
GAAATGAACTCTTGGTCCGCAGACT 386 361 257 Antisense
GTCCGCAGACTTGTTTCTCGAGAAC 709 475 271 Antisense
CCCATTTGCCGGAAGCGTGTCAGCA 550 257 352 Antisense
GTCAGCATGAGCAAGGTTATCCAGA 513 463 370 Antisense
GAACAACTCCGCGTCAAATGCATTG 344 353 493 Antisense
Sequence Source Affymetrix Proprietary Database