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[175707_s_at] Zinc finger, C2H2 type (7 domains)

Description g1399934 /REP_DB=GenBank Identifier /GB=U60113.1 /PROTEIN_GB=AAB03334.1 /CHR=1 /FEA=Mapped Transcript /DEF=SEM-4 short form
Cluster 6grp_highest_10_10 > 40      6grp_high1_10_10 > 05      4grp_highest_8_8 > 57      4grp_high_8_8 > 34      6grp_highest_nonorm > 30      6grp_total > 05      4grp_total > 45      6grp_highest_sub > De      6grp_cgc > 22      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 724
1 2 3 4 range
A 1298.5
(3)
P 		786
(-1.9)
P 		683.8
(-2.9)
P 		675.6
(-3)
P 		623
B 1053
(3)
P 		966.2
(1.9)
P 		581
(-2.9)
P 		574.4
(-3)
P 		479
C 1196
(3)
P 		978.4
(0.6)
P 		856.5
(-0.7)
P 		645.7
(-3)
P 		550
avr 1182.5
(3) 		910.2
(0) 		707.1
(-2.2) 		631.9
(-3) 		551

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1234
1 2 3 4 5 6 range
A 1604.9
(3)
P 		1442.4
(2.2)
P 		703.8
(-1.6)
P 		534
(-2.5)
P 		746.8
(-1.4)
P 		439
(-3)
P 		1166
B 1421
(3)
P 		759.1
(-1)
P 		563.5
(-2.2)
P 		733.6
(-1.2)
P 		584.9
(-2.1)
P 		434.2
(-3)
P 		987
C 1540.8
(3)
P 		1249.4
(1.5)
P 		928.2
(-0.1)
P 		658.9
(-1.5)
P 		659.9
(-1.5)
P 		370.8
(-3)
P 		1170
avr 1522.2
(3) 		1150.3
(1) 		731.8
(-1.3) 		642.2
(-1.8) 		663.9
(-1.6) 		414.7
(-3) 		1108
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 374
1 2 3 4 range
A 472.8
(3)
P 		170.6
(-1.8)
P 		178.7
(-1.7)
P 		98.9
(-3)
P 		374
B 335.8
(3)
P 		238.6
(0.3)
P 		134.6
(-2.7)
P 		122.4
(-3)
P 		213
C 395.9
(3)
P 		281.3
(0.6)
P 		298.5
(1)
P 		108.9
(-3)
P 		287
avr 401.5
(3) 		230.2
(-0.5) 		203.9
(-1.1) 		110.1
(-3) 		291

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 464
1 2 3 4 5 6 range
A 295.8
(-0.2)
P 		513
(3)
P 		153.3
(-2.3)
P 		135.4
(-2.6)
P 		225.3
(-1.3)
P 		106.9
(-3)
P 		406
B 494.5
(3)
P 		252.7
(-1.1)
P 		136.8
(-3)
P 		194.3
(-2)
P 		237.6
(-1.3)
P 		161.9
(-2.6)
P 		358
C 571.1
(3)
P 		381.2
(0.5)
P 		236.2
(-1.5)
P 		132.5
(-2.9)
P 		213.5
(-1.8)
P 		124.1
(-3)
P 		447
avr 453.8
(3) 		382.3
(1.7) 		175.4
(-2.2) 		154.1
(-2.6) 		225.5
(-1.2) 		131
(-3) 		323
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175707_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19694
Sequence Type Exemplar sequence
Representative Public ID 1399934 NCBI
Target Description g1399934 /REP_DB=GenBank Identifier /GB=U60113.1 /PROTEIN_GB=AAB03334.1 /CHR=1 /FEA=Mapped Transcript /DEF=SEM-4 short form
Cluster Evidence This cluster is supported by a Mapped Transcript.
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 
F15C11.1.1 ENSEMBL cdna:known chromosome:CEL140:I:7047030:7056966:1 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:7051747-7056897(+) 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:175707_S_AT
ccaccaccctcttagcattttagtgtgacaaacggtttttcttcatttctaattaatttt
tctaacgttttattttgctaatccctctctgtaaacactttcaattgtcactcacttcag
ctaattttccctctttcccccataaaaatctctttctttctctaactatggttgaattgg
gctagtcgctttaattgtgcatcacatccggttgctcccccaatggtctctaatttttct
ctcgtttctttgtctctcttataataatgattcgttcgtttccatttcccagttatctct
atgcaaattgtcagtttctcaaacattcttcttggtgcttttttctcattctcaattcaa
ttttcaatttgaaaaatctgcctgattcaaaaacaattgcttccatttcctccttcggcc
tcaaaaattaaatcagaaactacagaaattcctttcctcatttttatccatttcttgttg
tgatattcctatttataagtctcctcctctcacacaaagcccctcccattttctctgtgt
gtgtactc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCACCACCCTCTTAGCATTTTAGTG 689 273 2157 Antisense
TAATCCCTCTCTGTAAACACTTTCA 67 633 2235 Antisense
TGTCACTCACTTCAGCTAATTTTCC 170 559 2262 Antisense
TCTCTTTCTTTCTCTAACTATGGTT 348 613 2305 Antisense
GGGCTAGTCGCTTTAATTGTGCATC 467 489 2335 Antisense
TCGTTTCTTTGTCTCTCTTATAATA 272 603 2398 Antisense
TAATGATTCGTTCGTTTCCATTTCC 15 637 2421 Antisense
TCCATTTCCCAGTTATCTCTATGCA 377 591 2437 Antisense
ACATTCTTCTTGGTGCTTTTTTCTC 352 105 2479 Antisense
TATTCCTATTTATAAGTCTCCTCCT 180 665 2640 Antisense
TCCCATTTTCTCTGTGTGTGTACTC 541 597 2680 Antisense
Sequence Source GenBank