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[175451_at] Zinc finger, C3HC4 type (RING finger)

Description AU116439_rc /REP_DB=TREMBL Accession /GB=AU116439 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk744f8 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 87      6grp_high1_10_10 > 77      4grp_highest_8_8 > 30      4grp_high_8_8 > 04      6grp_highest_nonorm > 88      6grp_total > 68      4grp_total > 04      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1143
1 2 3 4 range
A 1527.6
(1.3)
P 		1108.6
(-3)
P 		1411.6
(0.1)
P 		1695.3
(3)
P 		587
B 1411.8
(-2.2)
P 		1290.4
(-3)
P 		1318
(-2.8)
P 		2252
(3)
P 		962
C 1432.9
(-0.5)
P 		1232.3
(-2.2)
P 		1143
(-3)
P 		1835.6
(3)
P 		693
avr 1457.4
(-0.9) 		1210.4
(-3) 		1290.9
(-2.3) 		1927.6
(3) 		717

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1215
1 2 3 4 5 6 range
A 1387.1
(-0.8)
P 		1043.6
(-3)
P 		1134.4
(-2.4)
P 		1097
(-2.7)
P 		1583.1
(0.5)
P 		1965.9
(3)
P 		922
B 1230.6
(-1.5)
P 		1195.8
(-1.7)
P 		935
(-3)
P 		1315.7
(-1)
P 		1324
(-1)
P 		2095.3
(3)
P 		1160
C 1198.2
(-2.2)
P 		1222.3
(-2.1)
P 		1059.4
(-3)
P 		1448.4
(-0.9)
P 		1238.3
(-2)
P 		2150.4
(3)
P 		1091
avr 1272
(-1.7) 		1153.9
(-2.4) 		1042.9
(-3) 		1287
(-1.6) 		1381.8
(-1) 		2070.5
(3) 		1028
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 316
1 2 3 4 range
A 556.2
(3)
P 		240.6
(-3)
P 		369
(-0.6)
P 		248.2
(-2.9)
P 		316
B 450.2
(2)
P 		318.7
(-2.5)
P 		305.4
(-3)
P 		479.9
(3)
P 		175
C 474.3
(3)
P 		354.3
(-1.4)
P 		398.4
(0.2)
P 		309.5
(-3)
P 		165
avr 493.6
(3) 		304.5
(-3) 		357.6
(-1.3) 		345.9
(-1.7) 		189

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 554
1 2 3 4 5 6 range
A 255.7
(-2.8)
P 		371.2
(0.2)
P 		247
(-3)
P 		278.2
(-2.2)
P 		477.7
(3)
P 		478.6
(3)
P 		232
B 428.2
(-0.8)
P 		398
(-1.1)
P 		227.1
(-3)
P 		348.5
(-1.7)
P 		537.9
(0.4)
P 		781.3
(3)
P 		554
C 444.1
(-0.7)
P 		373
(-1.6)
P 		269.6
(-3)
P 		291.3
(-2.7)
P 		400.7
(-1.3)
P 		719.9
(3)
P 		450
avr 376
(-1.1) 		380.7
(-1.1) 		247.9
(-3) 		306
(-2.2) 		472.1
(0.3) 		659.9
(3) 		412
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175451_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20370
Sequence Type Exemplar sequence
Representative Public ID AU116439 NCBI
Target Description AU116439_rc /REP_DB=TREMBL Accession /GB=AU116439 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk744f8 : 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_060201(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060201 NCBI Caenorhabditis elegans F26E4.11 (F26E4.11) mRNA, complete cds. 11/11 None
F26E4.11 ENSEMBL cdna:known chromosome:CEL140:I:9801877:9804796:1 gene:F26E4.11 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:9804371-9804718(+) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C3HC4 type (RING finger)
Ensembl F26E4.11
Entrez Gene 172833 Entrez gene
SwissProt P90859 EMBL-EBI
WormBase CE09695 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CHICKEN:GGA.5313.1.S1_A_AT similar to Autocrine motility factor receptor (AMF receptor) gga
CHICKEN:GGA.5313.2.S1_A_AT similar to Autocrine motility factor receptor (AMF receptor) gga
CHICKEN:GGA.5313.2.S1_AT similar to Autocrine motility factor receptor (AMF receptor) gga
HG-U133_PLUS_2:202203_S_AT autocrine motility factor receptor hs
HG-U133A:202203_S_AT autocrine motility factor receptor hs
HG-FOCUS:202203_S_AT autocrine motility factor receptor hs
HG-U133A_2:202203_S_AT autocrine motility factor receptor hs
HG-U133A_2:202204_S_AT autocrine motility factor receptor hs
HG-U133A:202204_S_AT autocrine motility factor receptor hs
HG-U133_PLUS_2:202204_S_AT autocrine motility factor receptor hs
HUGENEFL:M63175_AT autocrine motility factor receptor hs
U133_X3P:G5931954_3P_A_AT autocrine motility factor receptor hs
HG-U95AV2:38068_AT autocrine motility factor receptor hs
HG-U95E:87138_AT autocrine motility factor receptor hs
MOE430A:1450102_A_AT autocrine motility factor receptor mm
MOUSE430A_2:1450102_A_AT autocrine motility factor receptor mm
MOUSE430_2:1450102_A_AT autocrine motility factor receptor mm
MU11KSUBB:MSA.5806.0_S_AT autocrine motility factor receptor mm
MU11KSUBB:MSA.25686.0_S_AT autocrine motility factor receptor mm
MG-U74AV2:98094_F_AT autocrine motility factor receptor mm
MG-U74CV2:170543_R_AT autocrine motility factor receptor mm
MG-U74CV2:170366_AT autocrine motility factor receptor mm
MU19KSUBB:TC28794_AT Autocrine motility factor receptor, mRNA (cDNA clone MGC:19116 IMAGE:4209258) mm
MU19KSUBB:TC28794_G_AT Autocrine motility factor receptor, mRNA (cDNA clone MGC:19116 IMAGE:4209258) mm
MU19KSUBB:TC28795_AT Autocrine motility factor receptor, mRNA (cDNA clone MGC:19116 IMAGE:4209258) mm
MU19KSUBB:TC34793_I_AT Autocrine motility factor receptor, mRNA (cDNA clone MGC:19116 IMAGE:4209258) mm
RAE230B:1398537_AT autocrine motility factor receptor (predicted) rn
RAT230_2:1398537_AT autocrine motility factor receptor (predicted) rn
RAE230A:1371328_AT Cleavage and polyadenylation specific factor 5 (predicted) rn
RAT230_2:1371328_AT Cleavage and polyadenylation specific factor 5 (predicted) rn
RG-U34A:RC_AA800222_AT Cleavage and polyadenylation specific factor 5 (predicted) rn
Protein Similarities
Method ID Description E-Value
blast CAB03049 Hypothetical protein F26E4.11 [Caenorhabditis elegans] emb|CAB03009.1| Hypothetical protein F26E4.11 [Caenorhabditis elegans] ref|NP_492602.1| F26E4.11 [Caenorhabditis elegans] sp|P90859|YUES_CAEEL Hypothetical RING finger protein F26E4.11 in chromosome I 0.0
blast CAE60224 Hypothetical protein CBG03795 [Caenorhabditis briggsae] 0.0
blast NP_998328 autocrine motility factor receptor [Danio rerio] gb|AAH57411.1| Autocrine motility factor receptor [Danio rerio] 3.0E-36
Protein Domains
Database ID Description E-Value
Pfam IPR003892 EMBL-EBI Ubiquitin system component Cue 8.9E-15
Pfam IPR001841 EMBL-EBI Zn-finger, RING 1.5E-5
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_492602.1 8 15-37,57-79,84-106,119-141,151-168,188-207,211-233,271-293
F26E4.11 8 15-37,57-79,84-106,119-141,151-168,188-207,211-233,271-293
Sequence
Target Sequence 
>C. ELEGANS:175451_AT
gatgagattctctgagattcccatctttcatcatatttagcatagttccaccctcttttt
cctttcctttcatgaccctcttttcatgtatgggtatgatcatcatccacaccaactatc
aattttctctctgtatcctctatcgagattctgaatctcgttctcttgttccttttttcc
gtgtttcctctgaaatctcgactatcattctaatcctttacaattctcatcccggtacct
tgtgagtgtgaacctgtacatttttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGAGATTCTCTGAGATTCCCATC 533 411 60 Antisense
GAGATTCCCATCTTTCATCATATTT 518 395 73 Antisense
TCATATTTAGCATAGTTCCACCCTC 218 619 90 Antisense
TGATCATCATCCACACCAACTATCA 382 565 156 Antisense
AACTATCAATTTTCTCTCTGTATCC 44 141 173 Antisense
CTCTGTATCCTCTATCGAGATTCTG 76 233 188 Antisense
TTCCGTGTTTCCTCTGAAATCTCGA 11 699 236 Antisense
ATCTCGACTATCATTCTAATCCTTT 541 33 254 Antisense
CTAATCCTTTACAATTCTCATCCCG 110 227 269 Antisense
TCATCCCGGTACCTTGTGAGTGTGA 592 621 286 Antisense
GTGAGTGTGAACCTGTACATTTTTT 505 473 301 Antisense
Sequence Source Affymetrix Proprietary Database