[Home] | [Total List]

[189214_s_at] Zinc finger

Description C03B8.4 /REP_DB=WormBase Gene ID /WP=CE24782 /TR=SW:Q11107 /GB=AAA50671.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=Zinc finger
Cluster 6grp_highest_10_10 > 72      6grp_high1_10_10 > 38      4grp_highest_8_8 > 51      4grp_high_8_8 > 24      6grp_highest_nonorm > 20      6grp_total > 27      4grp_total > 39      6grp_highest_sub > Cu      6grp_cgc > 06      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1205
1 2 3 4 range
A 1734.3
(3)
P 		770.8
(-3)
P 		835.2
(-2.6)
P 		1014.7
(-1.5)
P 		964
B 1628.2
(3)
P 		1028
(-1.4)
P 		805.6
(-3)
P 		1069.5
(-1.1)
P 		823
C 1975.6
(3)
P 		974.3
(-2.9)
P 		973.9
(-2.9)
P 		956.5
(-3)
P 		1019
avr 1779.4
(3) 		924.4
(-2.7) 		871.6
(-3) 		1013.6
(-2.1) 		908

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1204
1 2 3 4 5 6 range
A 1958.1
(3)
P 		1185.7
(-0.9)
P 		754.5
(-3)
P 		911.3
(-2.2)
P 		904.8
(-2.3)
P 		1228.4
(-0.6)
P 		1204
B 1619.3
(3)
P 		1228.6
(0.2)
P 		1029.9
(-1.3)
P 		1028.7
(-1.3)
P 		790
(-3)
P 		1151.9
(-0.4)
P 		829
C 1360.9
(3)
P 		1194.8
(0.9)
P 		1135.6
(0.1)
P 		887.4
(-3)
P 		971.5
(-1.9)
P 		1301.2
(2.2)
P 		474
avr 1646.1
(3) 		1203
(-0.5) 		973.3
(-2.3) 		942.5
(-2.6) 		888.8
(-3) 		1227.2
(-0.3) 		757
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 506
1 2 3 4 range
A 631.5
(3)
P 		167.3
(-2.8)
P 		218.3
(-2.1)
P 		148.5
(-3)
P 		483
B 519.2
(3)
P 		253.9
(-1.8)
P 		186.7
(-3)
P 		227.9
(-2.3)
P 		333
C 654
(3)
P 		280.1
(-1.6)
P 		339.4
(-0.8)
P 		161.3
(-3)
P 		493
avr 601.6
(3) 		233.8
(-2.2) 		248.1
(-2) 		179.2
(-3) 		422

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 399
1 2 3 4 5 6 range
A 361
(1.6)
P 		421.7
(3)
P 		164.3
(-3)
P 		231.1
(-1.4)
P 		273
(-0.5)
P 		299.1
(0.1)
P 		257
B 563.4
(3)
P 		409
(0)
P 		250.1
(-3)
P 		272.5
(-2.6)
P 		321
(-1.6)
P 		429.5
(0.4)
P 		313
C 504.4
(3)
P 		364.6
(0.4)
P 		289
(-1)
P 		178.5
(-3)
P 		314.3
(-0.5)
P 		435.6
(1.7)
P 		326
avr 476.3
(3) 		398.4
(1.1) 		234.5
(-2.8) 		227.4
(-3) 		302.8
(-1.2) 		388.1
(0.9) 		249
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189214_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6721
Sequence Type Exemplar sequence
Representative Public ID C03B8.4 NCBI
Target Description C03B8.4 /REP_DB=WormBase Gene ID /WP=CE24782 /TR=SW:Q11107 /GB=AAA50671.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=Zinc 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_066277(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066277 NCBI Caenorhabditis elegans abnormal cell LINeage family member (lin-13) (lin-13) mRNA, complete cds. 11/11 A 
SNAP00000029920 ENSEMBL cdna:SNAP chromosome:CEL140:III:7700548:7709395:-1 11/11 None
GENEFINDER00000029925 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:7700548:7709395:-1 11/11 None
C03B8.4 ENSEMBL cdna:known chromosome:CEL140:III:7700261:7709395:-1 gene:C03B8.4 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
chrIII:7700545-7709393(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger
Gene Symbol lin-13
Ensembl C03B8.4
Entrez Gene 176083 Entrez gene
SwissProt Q11107 EMBL-EBI
WormBase CE30419 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA50671 Abnormal cell lineage protein 13 [Caenorhabditis elegans] ref|NP_498678.3| abnormal cell LINeage family member (lin-13) [Caenorhabditis elegans] gb|AAF87497.1| zinc finger protein LIN-13 [Caenorhabditis elegans] sp|Q11107|LIN13_CAEEL Zinc finger protein lin-13 (Abnormal cell lineage protein 13) 0.0
blast T15390 hypothetical protein C03B8.4 - Caenorhabditis elegans 0.0
blast CAE57179 Hypothetical protein CBG00018 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 7.4E-5
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 7.4E-5
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 7.4E-5
Sequence
Target Sequence 
>C. ELEGANS:189214_S_AT
aaatggtaccgatgcttcatgctgtccgatctgcggatcactgagcatgtggtcacttcc
aaaagacccgcacacggattgccttcaatctcacatcatacgccacgggctcgactatcg
ttcgtcatgccgacaatgcttgaaacaattccctgccgacgtcaatcaagaccaagtgat
tgcacacattctggacactcatggaatgagcatgcacggtaatactttccattgtaactt
gtgcactacgggtacgaagacggtagaagaattcgcagaacactgcaggaaggctcatgt
gttccacatccttgtcaaatcatctcactctacgcgcggtgaacttgtcgtgacaactgg
ccaagaatacgaaaattacgttggacttaaatcagttacaagggcatctttgaatagtat
ttcttcgcaaagagcttcgaatgcaggagagacggctcagccatcagttttgtgcgccgg
aagtggaaatgcagcgttgttaactattgctgcagcca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAATGGTACCGATGCTTCATGCTGT 410 121 5727 Antisense
CATGCTGTCCGATCTGCGGATCACT 56 211 5744 Antisense
GATCACTGAGCATGTGGTCACTTCC 507 421 5762 Antisense
TGCCTTCAATCTCACATCATACGCC 580 585 5806 Antisense
AATGCTTGAAACAATTCCCTGCCGA 315 165 5861 Antisense
GATTGCACACATTCTGGACACTCAT 665 433 5904 Antisense
GAGCATGCACGGTAATACTTTCCAT 524 389 5934 Antisense
TGTGTTCCACATCCTTGTCAAATCA 454 555 6024 Antisense
CTACGCGCGGTGAACTTGTCGTGAC 93 227 6056 Antisense
AGACGGCTCAGCCATCAGTTTTGTG 579 71 6176 Antisense
GCGTTGTTAACTATTGCTGCAGCCA 304 291 6220 Antisense
Sequence Source Affymetrix Proprietary Database