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[190576_s_at] Zinc finger, CCHC class

Description K07C5.6 /REP_DB=WormBase Gene ID /WP=CE06116 /TR=Q21278 /GB=CAA94899.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, CCHC class
Cluster 6grp_highest_10_10 > 66      6grp_high1_10_10 > 66      4grp_high_8_8 > 01      6grp_highest_nonorm > 83      6grp_total > 66      4grp_total > 15      6grp_highest_sub > Da      6grp_high1_sub > Da      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 308
1 2 3 4 range
A 491.9
(2.7)
P 		434.4
(-0.5)
A 		390.1
(-3)
P 		497
(3)
P 		107
B 583.3
(3)
P 		445.7
(-2.5)
P 		432.3
(-3)
P 		498.4
(-0.4)
P 		151
C 530
(1.4)
P 		303.9
(-3)
P 		423.4
(-0.7)
P 		611.4
(3)
P 		308
avr 535.1
(3) 		394.7
(-3) 		415.3
(-2.1) 		535.6
(3) 		141

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 290
1 2 3 4 5 6 range
A 529.7
(0.9)
P 		455.5
(-3)
P 		522.8
(0.5)
P 		479.2
(-1.8)
P 		488.4
(-1.3)
P 		570.4
(3)
P 		115
B 501.3
(-1.4)
P 		442.8
(-2.9)
P 		533.6
(-0.5)
P 		465.7
(-2.3)
P 		440.7
(-3)
P 		662.2
(3)
P 		222
C 375.8
(-2.9)
P 		524.4
(0.3)
P 		485.9
(-0.6)
P 		557.9
(1)
P 		372.4
(-3)
P 		652.2
(3)
P 		280
avr 468.9
(-1.9) 		474.2
(-1.8) 		514.1
(-0.5) 		500.9
(-0.9) 		433.8
(-3) 		628.3
(3) 		195
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 113
1 2 3 4 range
A 179.1
(3)
P 		94.3
(-1.8)
A 		102
(-1.3)
P 		72.7
(-3)
P 		106
B 186
(3)
P 		110.1
(-2.3)
P 		100.2
(-3)
P 		106.2
(-2.6)
P 		86
C 175.4
(3)
P 		87.4
(-3)
P 		147.6
(1.1)
P 		103.1
(-1.9)
P 		88
avr 180.2
(3) 		97.3
(-2.8) 		116.6
(-1.4) 		94
(-3) 		86

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 149
1 2 3 4 5 6 range
A 97.6
(-3)
P 		162
(3)
P 		113.9
(-1.5)
P 		121.5
(-0.8)
P 		147.4
(1.6)
P 		138.9
(0.8)
P 		64
B 174.4
(-0.5)
P 		147.4
(-1.8)
P 		129.6
(-2.7)
P 		123.3
(-3)
P 		179
(-0.3)
P 		246.9
(3)
P 		124
C 139.3
(-1.5)
P 		160
(-0.3)
P 		123.7
(-2.3)
P 		112.2
(-3)
P 		120.5
(-2.5)
P 		218.3
(3)
P 		106
avr 137.1
(-1.7) 		156.5
(-0.3) 		122.4
(-2.8) 		119
(-3) 		149
(-0.8) 		201.4
(3) 		82
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190576_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11633
Sequence Type Exemplar sequence
Representative Public ID K07C5.6 NCBI
Target Description K07C5.6 /REP_DB=WormBase Gene ID /WP=CE06116 /TR=Q21278 /GB=CAA94899.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, CCHC class
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_073260(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073260 NCBI Caenorhabditis elegans K07C5.6 (K07C5.6) mRNA, complete cds. 11/11 None
SNAP00000014065 ENSEMBL cdna:SNAP chromosome:CEL140:V:10356257:10358397:-1 11/11 None
GENEFINDER00000014074 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:10356257:10358397:-1 11/11 None
K07C5.6.1 ENSEMBL cdna:known chromosome:CEL140:V:10356190:10358405:-1 gene:K07C5.6 11/11 None
K07C5.6.2 ENSEMBL cdna:known chromosome:CEL140:V:10356257:10358406:-1 gene:K07C5.6 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
chrV:10356256-10358397(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, CCHC class
Ensembl K07C5.6
Entrez Gene 179443 Entrez gene
SwissProt Q21278 EMBL-EBI
WormBase CE06116 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:264633_AT zinc knuckle (CCHC-type) family protein at
CANINE:1590963_AT similar to step II splicing factor SLU7 cfa
CANINE:1590128_AT similar to step II splicing factor SLU7 cfa
CANINE_2:CFA.15466.1.S1_S_AT similar to step II splicing factor SLU7 cfa
CANINE_2:CFA.9139.1.A1_AT similar to step II splicing factor SLU7 cfa
CANINE_2:CFAAFFX.26421.1.S1_AT similar to step II splicing factor SLU7 cfa
DROSOPHILA_2:1624639_AT dm
DROSGENOME1:150801_AT dm
CHICKEN:GGA.20067.1.S1_S_AT similar to step II splicing factor SLU7 gga
CHICKEN:GGAAFFX.12925.1.S1_AT similar to step II splicing factor SLU7 gga
HU35KSUBB:RC_AA076351_AT step II splicing factor SLU7 hs
HU35KSUBD:RC_AA609554_AT step II splicing factor SLU7 hs
U133_X3P:HS.76325.2.A1_3P_AT step II splicing factor SLU7 hs
HG-U133B:231718_AT step II splicing factor SLU7 hs
HG-U133_PLUS_2:231718_AT step II splicing factor SLU7 hs
HG-U95B:52217_S_AT step II splicing factor SLU7 hs
HG-U95B:52219_R_AT step II splicing factor SLU7 hs
HG-U95B:57018_AT step II splicing factor SLU7 hs
HG-U133_PLUS_2:227990_AT Step II splicing factor SLU7 hs
HG-U133B:227990_AT Step II splicing factor SLU7 hs
HG-U95B:43358_R_AT Step II splicing factor SLU7 hs
HG-U95B:48520_AT Step II splicing factor SLU7 hs
HU35KSUBB:RC_F04990_AT Step II splicing factor SLU7 hs
U133_X3P:HS.76325.0.A1_3P_AT Step II splicing factor SLU7 hs
MOUSE430A_2:1447146_S_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MOE430A:1447146_S_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MOUSE430_2:1447146_S_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MU11KSUBA:AA451432_S_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MU11KSUBA:AA673474_RC_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MG-U74AV2:160772_I_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MG-U74CV2:168731_F_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MG-U74CV2:171314_R_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MG-U74CV2:169135_R_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MOE430A:1451727_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MOUSE430A_2:1451727_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MOUSE430_2:1451727_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MOE430A:1425489_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MOUSE430A_2:1425489_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MOUSE430_2:1425489_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MOE430A:1425487_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MOUSE430A_2:1425487_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MOUSE430_2:1425487_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MOE430A:1425488_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MOUSE430A_2:1425488_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MOUSE430_2:1425488_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MOE430B:1447805_S_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MOUSE430_2:1447805_S_AT DNA segment, Chr 11, ERATO Doi 730, expressed mm
MG-U74BV2:117029_AT DNA segment, Chr 11, ERATO Doi 730, expressed (D11Ertd730e), transcript variant 1, mRNA mm
MOUSE430A_2:1420030_AT DNA segment, Chr 11, ERATO Doi 730, expressed (D11Ertd730e), transcript variant 1, mRNA mm
MOE430A:1420030_AT DNA segment, Chr 11, ERATO Doi 730, expressed (D11Ertd730e), transcript variant 1, mRNA mm
MOUSE430_2:1420030_AT DNA segment, Chr 11, ERATO Doi 730, expressed (D11Ertd730e), transcript variant 1, mRNA mm
MG-U74CV2:167562_I_AT DNA segment, Chr 11, ERATO Doi 730, expressed (D11Ertd730e), transcript variant 1, mRNA mm
MU19KSUBB:TC32607_AT DNA segment, Chr 11, ERATO Doi 730, expressed (D11Ertd730e), transcript variant 1, mRNA mm
RAE230B:1381030_AT similar to step II splicing factor SLU7; DNA segment, Chr 11, ERATO Doi 730, expressed; DNA segment, Chr 3, Brigham & Womens Genetics 0878 expressed rn
RAT230_2:1381030_AT similar to step II splicing factor SLU7; DNA segment, Chr 11, ERATO Doi 730, expressed; DNA segment, Chr 3, Brigham & Womens Genetics 0878 expressed rn
RAE230B:1398588_AT similar to step II splicing factor SLU7; DNA segment, Chr 11, ERATO Doi 730, expressed; DNA segment, Chr 3, Brigham & Womens Genetics 0878 expressed rn
RAT230_2:1398588_AT similar to step II splicing factor SLU7; DNA segment, Chr 11, ERATO Doi 730, expressed; DNA segment, Chr 3, Brigham & Womens Genetics 0878 expressed rn
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA94899 Hypothetical protein K07C5.6 [Caenorhabditis elegans] ref|NP_505661.1| K07C5.6 [Caenorhabditis elegans] 0.0
blast CAE64798 Hypothetical protein CBG09591 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001878 EMBL-EBI Zn-finger, CCHC type 4.4E-5
Sequence
Target Sequence 
>C. ELEGANS:190576_S_AT
cagagaagtccatatcaccatcaccaccaagtgacgatgaagaaaaagaaaaagaacgcg
agaaggaaaggttaattgaaaaagaacgaagagaacgggaccagcggcgtcgtgataaaa
aacgtgaaaagcgtgaacgcaagaaggcaaagctggggaaaagaaagaggcgtcatcgcg
attcggacgatgaaagcgatccttcgtcgggaagtggttcagaatctgattctgatgaag
aaatgcgtaaagctatgaagaaggcgaaacgggaaaaggccgaaggaatgaaagctgcaa
gagagggtgatcgcggccgtaaatacaacactgactactccaacactgcaccgaacgaaa
aagaaatggaggcttatcgtgtgacaagtgttcattctgctgatccgatggcagcctaca
tga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAGAGAAGTCCATATCACCATCACC 326 205 1502 Antisense
CGAAGAGAACGGGACCAGCGGCGTC 524 253 1588 Antisense
GGGACCAGCGGCGTCGTGATAAAAA 456 493 1598 Antisense
AAAGAGGCGTCATCGCGATTCGGAC 440 123 1665 Antisense
GATGAAAGCGATCCTTCGTCGGGAA 234 411 1690 Antisense
GCTGCAAGAGAGGGTGATCGCGGCC 81 297 1795 Antisense
GGGTGATCGCGGCCGTAAATACAAC 700 497 1806 Antisense
AATACAACACTGACTACTCCAACAC 657 171 1823 Antisense
GAAATGGAGGCTTATCGTGTGACAA 398 361 1864 Antisense
GACAAGTGTTCATTCTGCTGATCCG 256 365 1884 Antisense
GCTGATCCGATGGCAGCCTACATGA 95 297 1900 Antisense
Sequence Source Affymetrix Proprietary Database