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[193113_s_at] Zinc finger, C3HC4 type (RING finger)

Description F54G8.4 /REP_DB=WormBase Gene ID /WP=CE05942 /TR=SW:Q03601 /GB=CAA80152.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Zinc finger, C3HC4 type (RING finger)
Cluster 6grp_highest_10_10 > 07      6grp_high1_10_10 > 42      4grp_highest_8_8 > 39      4grp_high_8_8 > 12      6grp_highest_nonorm > 42      6grp_total > 30      4grp_total > 12      6grp_highest_sub > 04      6grp_cgc > 73      6grp_high1_sub > 02_03      6grp_cgc_sub > 02_03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1374
1 2 3 4 range
A 1108
(0.7)
P 		674.5
(-2.4)
P 		587.3
(-3)
P 		1438.9
(3)
P 		852
B 728.7
(-2.3)
P 		866.9
(-1.7)
P 		576.9
(-3)
P 		1951.2
(3)
P 		1374
C 1156.7
(0.7)
P 		728.9
(-2.4)
P 		645.6
(-3)
P 		1471.7
(3)
P 		826
avr 997.8
(-0.7) 		756.8
(-2.1) 		603.3
(-3) 		1620.6
(3) 		1017

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 690
1 2 3 4 5 6 range
A 528.8
(-2.6)
P 		899.3
(1.9)
P 		993.4
(3)
P 		886.5
(1.7)
P 		908.9
(2)
P 		492.7
(-3)
P 		501
B 865
(0.1)
P 		1105.4
(2.6)
P 		971.7
(1.2)
P 		1139.9
(3)
P 		771.6
(-0.9)
P 		571.4
(-3)
P 		569
C 685
(-0.7)
P 		1076.6
(3)
P 		846.1
(0.8)
P 		958.8
(1.9)
P 		646.3
(-1.1)
P 		449.7
(-3)
P 		627
avr 692.9
(-0.8) 		1027.1
(3) 		937.1
(2) 		995.1
(2.6) 		775.6
(0.1) 		504.6
(-3) 		523
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 282
1 2 3 4 range
A 403.4
(3)
P 		146.4
(-3)
P 		153.5
(-2.8)
P 		210.6
(-1.5)
P 		257
B 232.4
(-0.9)
P 		214.1
(-1.3)
P 		133.7
(-3)
P 		415.8
(3)
P 		282
C 382.9
(3)
P 		209.6
(-3)
P 		225
(-2.5)
P 		248.1
(-1.7)
P 		173
avr 339.6
(3) 		190
(-2.3) 		170.7
(-3) 		291.5
(1.3) 		169

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 270
1 2 3 4 5 6 range
A 97.5
(-3)
P 		319.8
(3)
P 		216.3
(0.2)
P 		224.8
(0.4)
P 		274.3
(1.8)
P 		120
(-2.4)
P 		222
B 301
(0.4)
P 		367.9
(3)
P 		236
(-2.1)
P 		301.9
(0.4)
P 		313.5
(0.9)
P 		213.1
(-3)
P 		155
C 253.9
(0.5)
P 		328.5
(3)
P 		215.3
(-0.8)
P 		192.8
(-1.6)
P 		209.1
(-1)
P 		150.5
(-3)
P 		178
avr 217.5
(-1.1) 		338.7
(3) 		222.5
(-0.9) 		239.8
(-0.3) 		265.6
(0.5) 		161.2
(-3) 		178
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193113_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8102
Sequence Type Exemplar sequence
Representative Public ID F54G8.4 NCBI
Target Description F54G8.4 /REP_DB=WormBase Gene ID /WP=CE05942 /TR=SW:Q03601 /GB=CAA80152.1 /SUBMIT=HINXTON /CHR=3 /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_066627(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066627 NCBI Caenorhabditis elegans NHL (ring finger b-box coiled coil) domain containing family member (nhl-1) (nhl-1) mRNA, complete cds. 11/11 None
F54G8.4 ENSEMBL cdna:known chromosome:CEL140:III:9147294:9153795:-1 gene:F54G8.4 11/11 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
chrIII:9147507-9153705(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C3HC4 type (RING finger)
Gene Symbol nhl-1
Ensembl F54G8.4
Entrez Gene 176295 Entrez gene
SwissProt Q03601 EMBL-EBI
WormBase CE05942 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1637113_S_AT dm
DROSGENOME1:152079_AT dm
Protein Similarities
Method ID Description E-Value
blast CAA80152 Hypothetical protein F54G8.4 [Caenorhabditis elegans] emb|CAA79562.1| Hypothetical protein F54G8.4 [Caenorhabditis elegans] ref|NP_499028.1| NHL (ring finger b-box coiled coil) domain containing family member (nhl-1) [Caenorhabditis elegans] sp|Q03601|NHL1_CAEEL RING finger protein nhl-1 0.0
blast CAE62664 Hypothetical protein CBG06802 [Caenorhabditis briggsae] 0.0
blast XP_391967 PREDICTED: similar to ENSANGP00000011104 [Apis mellifera] 3.0E-80
Protein Domains
Database ID Description E-Value
Pfam IPR001258 EMBL-EBI NHL repeat 4.8E-8
Pfam IPR001258 EMBL-EBI NHL repeat 3.1E-6
Pfam IPR001258 EMBL-EBI NHL repeat 1.4E-13
Pfam IPR001258 EMBL-EBI NHL repeat 6.0E-9
Pfam IPR001258 EMBL-EBI NHL repeat 3.0E-10
Pfam IPR001258 EMBL-EBI NHL repeat 4.0E-9
Pfam IPR001841 EMBL-EBI Zn-finger, RING 3.0E-18
Sequence
Target Sequence 
>C. ELEGANS:193113_S_AT
agctccgagttattgtatccgacaggtacaatcatcgaatttccgtttttggattggaag
gagatcatttgttctcattcggtggacatggacagggaaatgctaagttcaataatccat
ggggagttgctgtcgatgatttgggaagtatctatgtggctgataaggataatcaccgcg
tccaagtcttcgacaaaaatggtcaattcattgcaaaattcggatctttcggacatctac
ctggtcaactaaacagtccattgttcatagcagttagcagagttactcatcacgtgtatg
tatcagattcttcgaatcatcgaatcagcgtattcgatccccacggtgttcatttgtttt
cattcggcgaggaaggttttcatggtggacaattcaaattcccacgtggaattgctattg
attcacaggaaaacctaataatcgccgactccggtaacaacaggatccaagttttcgacg
cccaaggtcaatttgtctcctctttcggaacttggggtggaggagctggacaactgaaag
gtgtcgaagatgtttgtgtcactgctgacggttcaattgttg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCTCCGAGTTATTGTATCCGACAG 118 79 2318 Antisense
GATCATTTGTTCTCATTCGGTGGAC 246 421 2380 Antisense
TAAGGATAATCACCGCGTCCAAGTC 178 637 2481 Antisense
ATCTTTCGGACATCTACCTGGTCAA 521 31 2541 Antisense
CCCCACGGTGTTCATTTGTTTTCAT 693 261 2656 Antisense
GGACAATTCAAATTCCCACGTGGAA 602 525 2704 Antisense
ATAATCGCCGACTCCGGTAACAACA 202 1 2755 Antisense
CAACAGGATCCAAGTTTTCGACGCC 695 187 2775 Antisense
GACGCCCAAGGTCAATTTGTCTCCT 23 381 2794 Antisense
CAATTTGTCTCCTCTTTCGGAACTT 692 179 2806 Antisense
GTCACTGCTGACGGTTCAATTGTTG 573 465 2875 Antisense
Sequence Source Affymetrix Proprietary Database