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[193521_s_at] Zinc finger, C2H2 type (7 domains)

Description F15C11.1 /REP_DB=WormBase Gene ID /WP=CE17673 /GEN=sem-4 /TR=Q17396 /GB=CAA95798.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Zinc finger, C2H2 type (7 domains)
Cluster 6grp_high1_10_10 > 15      4grp_highest_8_8 > 48      4grp_high_8_8 > 42      6grp_total > 15      4grp_total > 45      6grp_cgc > 32      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 781
1 2 3 4 range
A 966.1
(3)
P 		928
(2.5)
P 		593.7
(-1.5)
P 		470.7
(-3)
P 		495
B 1169.3
(3)
P 		770.4
(-0.1)
P 		548.7
(-1.8)
P 		397.1
(-3)
P 		772
C 1100.2
(3)
P 		862.3
(1)
P 		535.1
(-1.8)
P 		388.6
(-3)
P 		712
avr 1078.5
(3) 		853.6
(1) 		559.2
(-1.7) 		418.8
(-3) 		660

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 759
1 2 3 4 5 6 range
A 769.6
(0.4)
P 		1080.9
(3)
P 		390.9
(-2.7)
P 		411.6
(-2.5)
P 		466.8
(-2.1)
P 		353.5
(-3)
P 		727
B 763.6
(3)
P 		761.9
(3)
P 		542.3
(-0)
P 		368.6
(-2.4)
P 		366.3
(-2.4)
P 		321.9
(-3)
P 		442
C 1058.7
(3)
P 		719.2
(0.2)
P 		665.3
(-0.2)
P 		413.6
(-2.3)
A 		400.1
(-2.4)
P 		330.3
(-3)
P 		728
avr 864
(3) 		854
(2.9) 		532.8
(-0.8) 		397.9
(-2.3) 		411.1
(-2.1) 		335.2
(-3) 		529
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 307
1 2 3 4 range
A 351.8
(3)
P 		201.4
(-0.2)
P 		155.2
(-1.2)
P 		68.9
(-3)
P 		283
B 372.9
(3)
P 		190.3
(-0.8)
P 		127.1
(-2.1)
P 		84.6
(-3)
P 		288
C 364.2
(3)
P 		247.9
(0.7)
P 		186.5
(-0.6)
P 		65.5
(-3)
P 		299
avr 363
(3) 		213.2
(-0.1) 		156.3
(-1.3) 		73
(-3) 		290

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 309
1 2 3 4 5 6 range
A 141.9
(-1.9)
P 		384.4
(3)
P 		85.1
(-3)
P 		104.4
(-2.6)
P 		140.9
(-1.9)
P 		86.1
(-3)
P 		299
B 265.7
(3)
P 		253.6
(2.6)
P 		131.7
(-1.8)
P 		97.6
(-3)
P 		148.8
(-1.2)
P 		120
(-2.2)
P 		168
C 392.4
(3)
P 		219.4
(-0.4)
P 		169.3
(-1.3)
P 		83.2
(-3)
A 		129.5
(-2.1)
P 		110.6
(-2.5)
P 		309
avr 266.7
(2.4) 		285.8
(3) 		128.7
(-1.9) 		95.1
(-3) 		139.7
(-1.6) 		105.6
(-2.7) 		191
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193521_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2231
Sequence Type Exemplar sequence
Representative Public ID F15C11.1 NCBI
Target Description F15C11.1 /REP_DB=WormBase Gene ID /WP=CE17673 /GEN=sem-4 /TR=Q17396 /GB=CAA95798.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Zinc finger, C2H2 type (7 domains)
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_059596(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059596 NCBI Caenorhabditis elegans SEx Muscle abnormal family member (sem-4) (sem-4) mRNA, complete cds. 11/11 A 
GENEFINDER00000023824 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:7047040:7056255:1 10/11 None
F15C11.1.1 ENSEMBL cdna:known chromosome:CEL140:I:7047030:7056966:1 gene:F15C11.1 11/11 None
F15C11.1.2 ENSEMBL cdna:known chromosome:CEL140:I:7047032:7056366:1 gene:F15C11.1 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
chrI:7046970-7056297(+) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C2H2 type (7 domains)
Gene Symbol sem-4
Ensembl F15C11.1
Entrez Gene 172435 Entrez gene
SwissProt Q17396 EMBL-EBI
WormBase CE17673 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 CAA95798 Hypothetical protein F15C11.1 [Caenorhabditis elegans] gb|AAB03333.1| SEM-4 long form [Caenorhabditis elegans] ref|NP_491997.1| SEx Muscle abnormal family member (sem-4) [Caenorhabditis elegans] 0.0
blast AAB03334 SEM-4 short form [Caenorhabditis elegans] 0.0
blast CAE65708 Hypothetical protein CBG10785 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 1.4E-6
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 6.1E-6
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 7.5E-7
Sequence
Target Sequence 
>C. ELEGANS:193521_S_AT
ccacgtcaaatgcctgtactgtcgaaacatcaatgtggagtgtgcttcaagcatttcagc
tcaagttctgctctccagattcacatgagaactcataccggagacaagccattcaaatgt
gatatgtgtggacgcgcattcacaactcgtggtaatctcaaagttcatatgggaactcat
tcgtggcaacaaagcccatcacgacgtggacgacgaatcttcgatgtggcctcatcggtc
actgagaaaccgatgcttcaaagcccaattctcccaacatccggtgctccgggagcttct
cctcttgcaatgcttggtccaaatggactatcgggtcttgaaatgatgatgatgttgtgg
agaactgtatgctccgtgtgccaaaaagtgtgtcaatcaccgaatgagcttgaacaacat
ttgaaagagcatttgaataatggatcatctgctgctccaact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCACGTCAAATGCCTGTACTGTCGA 334 275 1750 Antisense
GCATTTCAGCTCAAGTTCTGCTCTC 236 309 1800 Antisense
ACGCGCATTCACAACTCGTGGTAAT 324 91 1881 Antisense
GGGAACTCATTCGTGGCAACAAAGC 53 495 1920 Antisense
AACAAAGCCCATCACGACGTGGACG 147 135 1937 Antisense
GACGACGAATCTTCGATGTGGCCTC 669 379 1958 Antisense
GTGGCCTCATCGGTCACTGAGAAAC 597 491 1975 Antisense
CGATGCTTCAAAGCCCAATTCTCCC 163 249 2000 Antisense
TCTCCTCTTGCAATGCTTGGTCCAA 53 609 2047 Antisense
GGAGAACTGTATGCTCCGTGTGCCA 31 519 2108 Antisense
TAATGGATCATCTGCTGCTCCAACT 215 637 2187 Antisense
Sequence Source Affymetrix Proprietary Database