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[174491_at] Zinc finger, C3HC4 type (RING finger)

Description CEK008A2R_rc /REP_DB=TREMBL Accession /GB=D28025 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk8a2 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 89      6grp_high1_10_10 > 98      4grp_highest_8_8 > 43      4grp_high_8_8 > 24      6grp_highest_nonorm > 95      6grp_total > 95      4grp_total > 39      6grp_highest_sub > In      6grp_high1_sub > In      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 315
1 2 3 4 range
A 729
(3)
P 		449.7
(-3)
P 		518.2
(-1.5)
P 		531
(-1.3)
P 		279
B 647.5
(3)
P 		479.2
(-3)
P 		525.8
(-1.3)
P 		632.7
(2.5)
P 		168
C 764.6
(3)
P 		511.4
(-3)
P 		614
(-0.6)
P 		536.3
(-2.4)
P 		253
avr 713.7
(3) 		480.1
(-3) 		552.7
(-1.1) 		566.7
(-0.8) 		234

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 795
1 2 3 4 5 6 range
A 558.2
(-3)
P 		626.4
(-2.2)
P 		553.6
(-3)
P 		714.2
(-1.3)
P 		1116.4
(3)
P 		995.3
(1.7)
P 		563
B 556.9
(-1.6)
P 		607.1
(-1.1)
P 		407.6
(-3)
P 		896
(1.6)
P 		987
(2.5)
P 		1045.1
(3)
P 		638
C 586.5
(-2.2)
P 		576.8
(-2.2)
P 		485.5
(-3)
P 		866.5
(0.2)
P 		862.2
(0.2)
P 		1203
(3)
P 		718
avr 567.2
(-2.1) 		603.4
(-1.8) 		482.2
(-3) 		825.6
(0.4) 		988.5
(2.1) 		1081.1
(3) 		599
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 188
1 2 3 4 range
A 265.4
(3)
P 		97.6
(-2.4)
P 		135.5
(-1.2)
P 		77.7
(-3)
P 		188
B 206.5
(3)
P 		118.4
(-3)
P 		121.8
(-2.8)
P 		134.8
(-1.9)
P 		88
C 253.1
(3)
P 		147
(-0.9)
P 		214
(1.6)
P 		90.4
(-3)
P 		163
avr 241.7
(3) 		121
(-2.1) 		157.1
(-0.6) 		101
(-3) 		141

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 304
1 2 3 4 5 6 range
A 102.9
(-3)
P 		222.8
(0.1)
P 		120.6
(-2.5)
P 		181.1
(-1)
P 		336.9
(3)
P 		242.3
(0.6)
P 		234
B 193.8
(-1.1)
P 		202.1
(-1)
P 		99
(-3)
P 		237.3
(-0.3)
P 		401
(3)
P 		389.7
(2.8)
P 		302
C 217.4
(-1)
P 		176
(-1.9)
P 		123.6
(-3)
P 		174.2
(-1.9)
P 		279
(0.3)
P 		402.7
(3)
P 		279
avr 171.4
(-1.5) 		200.3
(-0.8) 		114.4
(-3) 		197.5
(-0.8) 		339
(2.8) 		344.9
(3) 		231
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174491_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20416
Sequence Type Exemplar sequence
Representative Public ID CEK008A2R NCBI
Target Description CEK008A2R_rc /REP_DB=TREMBL Accession /GB=D28025 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk8a2 : 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_060098(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060098 NCBI Caenorhabditis elegans F16A11.1 (F16A11.1) mRNA, complete cds. 11/11 None
F16A11.1 ENSEMBL cdna:known chromosome:CEL140:I:9402086:9412148:-1 gene:F16A11.1 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:9402027-9402448(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C3HC4 type (RING finger)
Ensembl F16A11.1
Entrez Gene 172764 Entrez gene
SwissProt P90839 EMBL-EBI
WormBase CE17679 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1591738_AT similar to F16A11.1 cfa
CANINE_2:CFAAFFX.13920.1.S1_AT similar to F16A11.1 cfa
CHICKEN:GGA.1145.2.S1_A_AT similar to RIKEN cDNA 4930470D19 gga
HU35KSUBB:RC_AA165677_AT KIAA1972 protein hs
HU35KSUBC:RC_AA255522_AT KIAA1972 protein hs
HU35KSUBC:RC_AA062971_AT KIAA1972 protein hs
U133_X3P:HS.181161.0.A3_3P_AT KIAA1972 protein hs
U133_X3P:HS.181161.0.A2_3P_AT KIAA1972 protein hs
U133_X3P:HS.181161.0.A1_3P_AT KIAA1972 protein hs
HG-U133_PLUS_2:225770_AT KIAA1972 protein hs
HG-U133B:225770_AT KIAA1972 protein hs
HG-U133_PLUS_2:225773_AT KIAA1972 protein hs
HG-U133B:225773_AT KIAA1972 protein hs
HG-U133_PLUS_2:225774_AT KIAA1972 protein hs
HG-U133B:225774_AT KIAA1972 protein hs
HG-U95B:54842_AT KIAA1972 protein hs
HG-U95C:49936_AT KIAA1972 protein hs
MG-U74BV2:105580_AT RIKEN cDNA 4930470D19 gene mm
MG-U74BV2:163861_AT RIKEN cDNA 4930470D19 gene mm
MOE430A:1424134_AT RIKEN cDNA 4930470D19 gene mm
MOUSE430A_2:1424134_AT RIKEN cDNA 4930470D19 gene mm
MOUSE430_2:1424134_AT RIKEN cDNA 4930470D19 gene mm
MOE430A:1424135_AT RIKEN cDNA 4930470D19 gene mm
MOUSE430A_2:1424135_AT RIKEN cDNA 4930470D19 gene mm
MOUSE430_2:1424135_AT RIKEN cDNA 4930470D19 gene mm
RAT230_2:1394441_AT similar to SPla/RYanodine receptor SPRY (1J970) (predicted) rn
RAE230B:1394441_AT similar to SPla/RYanodine receptor SPRY (1J970) (predicted) rn
RAE230B:1379221_AT similar to SPla/RYanodine receptor SPRY (1J970) (predicted) rn
RAT230_2:1379221_AT similar to SPla/RYanodine receptor SPRY (1J970) (predicted) rn
RAE230B:1385860_AT similar to SPla/RYanodine receptor SPRY (1J970) (predicted) rn
RAT230_2:1385860_AT similar to SPla/RYanodine receptor SPRY (1J970) (predicted) rn
Protein Similarities
Method ID Description E-Value
blast CAB04122 Hypothetical protein F16A11.1 [Caenorhabditis elegans] ref|NP_492499.1| F16A11.1 [Caenorhabditis elegans] 0.0
blast CAE74451 Hypothetical protein CBG22191 [Caenorhabditis briggsae] 0.0
blast XP_414014 PREDICTED: similar to RIKEN cDNA 4930470D19 [Gallus gallus] 1.0E-131
Protein Domains
Database ID Description E-Value
Pfam IPR003877 EMBL-EBI SPla/RYanodine receptor SPRY 7.4E-33
Sequence
Target Sequence 
>C. ELEGANS:174491_AT
gagaagtctcttaccgtgttgtttaattttttgaaaattgtcaccttgcatattatgggg
ttatgctcttttttgttagtcctgtgacggaatagagcctaacaattaattaattcctca
acattttgcatttaattctagtttttccaaacgcccggtttacgggtggctgattctcgg
aaaaaaacaaacttttgcctttcatttgtcattttccaggaaaatatcaactattttacc
cacttttacataatttctcggacccgcttctctttaatgacatcatcatcatctttccac
cacacgttgtacatttttcttgtcttttcttcttgaaacaaattcttggttgtcttcttc
ttcttgtatattgcgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGAAGTCTCTTACCGTGTTGTTTA 553 391 26 Antisense
AATTGTCACCTTGCATATTATGGGG 30 179 61 Antisense
GGTTATGCTCTTTTTTGTTAGTCCT 207 505 84 Antisense
GTTTACGGGTGGCTGATTCTCGGAA 199 447 183 Antisense
AACTTTTGCCTTTCATTTGTCATTT 100 139 215 Antisense
TCAACTATTTTACCCACTTTTACAT 40 631 252 Antisense
TACATAATTTCTCGGACCCGCTTCT 508 643 272 Antisense
ACCCGCTTCTCTTTAATGACATCAT 608 89 287 Antisense
CTTTCCACCACACGTTGTACATTTT 272 223 318 Antisense
TTTCTTGTCTTTTCTTCTTGAAACA 146 673 341 Antisense
GTCTTCTTCTTCTTGTATATTGCGT 202 469 377 Antisense
Sequence Source Affymetrix Proprietary Database