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[190045_at] zinc finger protein

Description Y4C6A.3 /REP_DB=WormBase Gene ID /WP=CE21299 /TR=Q9N4T7 /GB=AAF60739.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_total > 78      4grp_total > 01      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 86
1 2 3 4 range
A 54.7
(-3)
A 		60.9
(-2.5)
A 		70.1
(-1.7)
P 		123.4
(3)
P 		69
B 62.3
(0.4)
A 		43.1
(-3)
A 		77.2
(3)
P 		70.2
(1.8)
P 		34
C 58.9
(-0.6)
A 		69.4
(0.6)
A 		37.1
(-3)
A 		91.3
(3)
P 		54
avr 58.6
(-2.9) 		57.8
(-3) 		61.5
(-2.4) 		95
(3) 		37

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 313
1 2 3 4 5 6 range
A 77.6
(-1.9)
M 		28.9
(-2.9)
A 		25.3
(-3)
A 		52.3
(-2.4)
A 		165.8
(-0.1)
P 		311.2
(3)
P 		286
B 9.8
(-3)
A 		38.6
(-2.4)
P 		26.5
(-2.7)
A 		47.9
(-2.3)
P 		146.1
(-0.4)
P 		322.8
(3)
P 		313
C 46.2
(-2.8)
A 		51.3
(-2.7)
M 		39.3
(-3)
A 		73.6
(-2.2)
P 		120.2
(-1.1)
P 		293
(3)
P 		254
avr 44.5
(-2.7) 		39.6
(-2.8) 		30.4
(-3) 		57.9
(-2.4) 		144
(-0.6) 		309
(3) 		279
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 9
1 2 3 4 range
A 19.9
(3)
A 		13.2
(-3)
A 		18.3
(1.6)
P 		18.1
(1.4)
P 		7
B 19.9
(3)
A 		10.6
(-3)
A 		17.9
(1.7)
P 		15
(-0.2)
P 		9
C 19.5
(2.6)
A 		20
(3)
A 		12.9
(-3)
A 		15.4
(-0.9)
P 		7
avr 19.8
(3) 		14.6
(-3) 		16.4
(-0.9) 		16.2
(-1.2) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 117
1 2 3 4 5 6 range
A 14.3
(-2.2)
M 		10.3
(-2.6)
A 		5.5
(-3)
A 		13.3
(-2.3)
A 		50
(0.8)
P 		75.8
(3)
P 		70
B 3.4
(-3)
A 		12.9
(-2.5)
P 		6.4
(-2.8)
A 		12.7
(-2.5)
P 		59.3
(-0.1)
P 		120.4
(3)
P 		117
C 17.1
(-2.5)
A 		15.6
(-2.6)
M 		10
(-3)
A 		14.8
(-2.7)
P 		38.9
(-1)
P 		98.1
(3)
P 		88
avr 11.6
(-2.7) 		12.9
(-2.6) 		7.3
(-3) 		13.6
(-2.6) 		49.4
(-0.2) 		98.1
(3) 		91
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190045_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10389
Sequence Type Exemplar sequence
Representative Public ID Y4C6A.3 NCBI
Target Description Y4C6A.3 /REP_DB=WormBase Gene ID /WP=CE21299 /TR=Q9N4T7 /GB=AAF60739.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=zinc finger protein
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_068410(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068410 NCBI Caenorhabditis elegans Y4C6A.3 (Y4C6A.3) mRNA, complete cds. 11/11 None
SNAP00000043994 ENSEMBL cdna:SNAP chromosome:CEL140:IV:5451133:5457671:-1 11/11 None
GENEFINDER00000044004 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:5451133:5452380:-1 11/11 None
Y4C6A.3 ENSEMBL cdna:known chromosome:CEL140:IV:5451133:5452380:-1 gene:Y4C6A.3 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
chrIV:5451138-5452386(-) 100.0 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Ensembl Y4C6A.3
Entrez Gene 189354 Entrez gene
SwissProt Q9N4T7 EMBL-EBI
WormBase CE21299 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF60739 Hypothetical protein Y4C6A.3 [Caenorhabditis elegans] ref|NP_500811.1| Y4C6A.3 [Caenorhabditis elegans] 0.0
blast AAF60739 Hypothetical protein Y4C6A.3 [Caenorhabditis elegans] ref|NP_500811.1| Y4C6A.3 [Caenorhabditis elegans] 1.0E-178
blast AAK68539 Hypothetical protein Y59H11AM.1 [Caenorhabditis elegans] ref|NP_501464.1| Y59H11AM.1 [Caenorhabditis elegans] 7.0E-53
blast AAA85759 Major sperm protein protein 49 [Caenorhabditis elegans] ref|NP_494970.1| Major Sperm Protein family member (msp-49) [Caenorhabditis elegans] sp|Q18461|MSP49_CAEEL Major sperm protein 49 (MSP) 7.0E-53
blast NP_500818 T11F8.1 [Caenorhabditis elegans] gb|AAB88555.1| Hypothetical protein T11F8.1 [Caenorhabditis elegans] 3.0E-14
blast AAB88316 Hypothetical protein C24D10.5 [Caenorhabditis elegans] ref|NP_500727.1| C24D10.5 [Caenorhabditis elegans] 2.0E-13
Protein Domains
Database ID Description E-Value
Pfam IPR001841 EMBL-EBI Zn-finger, RING 9.9E-9
Pfam IPR000535 EMBL-EBI Major sperm protein (MSP) domain 1.3E-8
Pfam IPR000535 EMBL-EBI Major sperm protein (MSP) domain 6.9E-13
Pfam IPR001841 EMBL-EBI Zn-finger, RING 9.9E-9
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_500811.1 6 13-32,52-74,94-113,118-140,161-183,189-211
Y4C6A.3 6 13-32,52-74,94-113,118-140,161-183,189-211
SNAP00000043994 4 261-283,302-324,344-366,373-395
GENEFINDER00000044004 6 13-32,52-74,94-113,118-140,161-183,189-211
Sequence
Target Sequence 
>C. ELEGANS:190045_AT
acattgcattgcacatcgtctttgcattgtactacttcttgttcatctggaatgttgagt
catcgtaccctcggatgaaacgaacagttgaatggaaagagtttgttattctaacaattt
tctttcacgctcttatcattccaacattcttcactttcctgtatttcggaatgtatagaa
atatgctgctgatggttctcactgatatcttctgcacacctacatgctttctcaatttgg
taccatttgtgatagttcttgaagaaacaaatgaaagaaattcaaagaaactgcctgata
tcgagatggttctacttggtggcactgttcgaagcaatactgatgtttcagtggaaaatg
gagtctcaagagaatcaaaccgtccaacttgtgcaatttgttcaacaaaatacagtaaga
attgctctacccaaaccccgcgaattctcgacaaatgtggacatactttgtgtgaaggat
gtattcaaaatattctgaaacacagcaatcaaatctcgtgtccaatctg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACATTGCATTGCACATCGTCTTTGC 356 105 386 Antisense
GCATTGTACTACTTCTTGTTCATCT 662 307 409 Antisense
GGAATGTTGAGTCATCGTACCCTCG 145 531 434 Antisense
TCTAACAATTTTCTTTCACGCTCTT 243 613 495 Antisense
TTATCATTCCAACATTCTTCACTTT 462 679 518 Antisense
GATGGTTCTCACTGATATCTTCTGC 35 409 576 Antisense
CACACCTACATGCTTTCTCAATTTG 460 195 600 Antisense
GGTTCTACTTGGTGGCACTGTTCGA 194 505 693 Antisense
GAATCAAACCGTCCAACTTGTGCAA 489 325 757 Antisense
AACCCCGCGAATTCTCGACAAATGT 696 145 819 Antisense
GCAATCAAATCTCGTGTCCAATCTG 297 323 890 Antisense
Sequence Source Affymetrix Proprietary Database