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[188981_at] RNA-binding

Description T10B11.3 /REP_DB=WormBase Gene ID /WP=CE18242 /TR=Q9TZI2 /GB=AAC67471.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=RNA-binding
Cluster 6grp_high1_10_10 > 54      6grp_total > 40      4grp_total > 56      6grp_cgc > 36      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 206
1 2 3 4 range
A 360.5
(0.6)
A 		261.2
(-3)
A 		428.1
(3)
A 		315
(-1.1)
P 		167
B 311.9
(-1.8)
M 		294.8
(-2.3)
A 		467.1
(3)
P 		273.4
(-3)
P 		194
C 321.4
(-3)
A 		390.4
(0.1)
A 		454.6
(3)
P 		358.4
(-1.3)
P 		133
avr 331.3
(-2.3) 		315.5
(-3) 		449.9
(3) 		315.6
(-3) 		134

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 329
1 2 3 4 5 6 range
A 446.9
(1.3)
P 		483.3
(3)
A 		443.1
(1.2)
P 		466.3
(2.2)
P 		352.3
(-3)
P 		466.4
(2.2)
P 		131
B 375.4
(-3)
P 		432.7
(0.8)
P 		401.1
(-1.3)
M 		406.5
(-0.9)
P 		436
(1.1)
P 		464.9
(3)
P 		90
C 397.1
(-1)
P 		470.5
(0.3)
P 		533.7
(1.4)
P 		618.7
(3)
A 		289.8
(-3)
P 		473.9
(0.4)
P 		329
avr 406.5
(-0.9) 		462.2
(1.5) 		459.3
(1.3) 		497.2
(3) 		359.4
(-3) 		468.4
(1.7) 		138
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 112
1 2 3 4 range
A 131.3
(3)
A 		56.7
(-2.3)
A 		111.9
(1.6)
A 		46.1
(-3)
P 		85
B 99.5
(2)
M 		72.8
(-1.3)
A 		108.2
(3)
P 		58.3
(-3)
P 		50
C 106.4
(-0.2)
A 		112.3
(0.2)
A 		158.4
(3)
P 		60.4
(-3)
P 		98
avr 112.4
(1.8) 		80.6
(-0.8) 		126.2
(3) 		54.9
(-3) 		71

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 95
1 2 3 4 5 6 range
A 82.4
(-3)
P 		171.9
(3)
A 		96.5
(-2.1)
P 		118.3
(-0.6)
P 		106.3
(-1.4)
P 		113.6
(-0.9)
P 		90
B 130.6
(-0.5)
P 		144
(0.5)
P 		97.4
(-3)
M 		107.7
(-2.2)
P 		177.1
(3)
P 		173.3
(2.7)
P 		80
C 147.2
(1.9)
P 		143.5
(1.6)
P 		135.8
(0.9)
P 		124.4
(-0.2)
A 		93.8
(-3)
P 		158.6
(3)
P 		65
avr 120.1
(-1.6) 		153.1
(3) 		109.9
(-3) 		116.8
(-2) 		125.7
(-0.8) 		148.5
(2.4) 		43
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188981_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1773
Sequence Type Exemplar sequence
Representative Public ID T10B11.3 NCBI
Target Description T10B11.3 /REP_DB=WormBase Gene ID /WP=CE18242 /TR=Q9TZI2 /GB=AAC67471.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=RNA-binding
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_059575
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
SNAP00000021307 ENSEMBL cdna:SNAP chromosome:CEL140:I:6934441:6937656:1 None
GENEFINDER00000021325 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:6933114:6937656:1 None
T10B11.3 ENSEMBL cdna:known chromosome:CEL140:I:6934417:6937731:1 gene:T10B11.3 None
NM_059575 NCBI Caenorhabditis elegans T10B11.3 (RNA-binding) mRNA, complete cds. 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:6934371-6937587(+) 98.01 100.0
Public Domain and Genome References
Gene Title RNA-binding
Gene Symbol ztf-4
Ensembl T10B11.3
Entrez Gene 172422 Entrez gene
SwissProt Q9TZI2 EMBL-EBI
WormBase CE34364 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 NP_491976 T10B11.3 [Caenorhabditis elegans] gb|AAC67471.2| Hypothetical protein T10B11.3 [Caenorhabditis elegans] 1.0E-177
blast NP_491976 T10B11.3 [Caenorhabditis elegans] gb|AAC67471.2| Hypothetical protein T10B11.3 [Caenorhabditis elegans] 1.0E-170
blast CAE67281 Hypothetical protein CBG12729 [Caenorhabditis briggsae] 1.0E-140
blast CAE67281 Hypothetical protein CBG12729 [Caenorhabditis briggsae] 1.0E-134
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 4.9E-8
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 8.8E-7
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000021325 1 250-272
Sequence
Target Sequence 
>C. ELEGANS:188981_AT
ttctcctttcattatattttccttctaaagaaaaacgttataatgcgatggcgtttcact
ctttgtgtaagttggattgttactgcggtcgccaaacgcccctatgaagacgaggagtac
gagatcttcaagcagaacaaaagaaataagcagtttgcaaatggagatacaactatcaat
gagcagttggcaccgaatgaaatgtgcgacacaatggtgtgtggatattgccgtttcgtg
acaagtgattttgaagagttcaaggaacatcgaatcgctggctgtaataaatacaaggat
ccagaagaaccacgacatcgtctcaaatgtgccacttgtagtcagagattcctcggcgcg
tggggacttctcgaacatttaaccgattttcatcgtatgctgctctatactgaagagaag
atgacgccaaatgatcttgctcaaatgcgtggtggatccgtttcaacgccatcttcgatt
ccagaaactccagcttctggttctgcggctcctgctgctccaaattcagccaactccaca
ccatctcaccatatcgtcgaaggc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCTCCTTTCATTATATTTTCCTTC 268 693 811 Antisense
GATGGCGTTTCACTCTTTGTGTAAG 242 407 857 Antisense
GATTGTTACTGCGGTCGCCAAACGC 297 435 885 Antisense
TCGCCAAACGCCCCTATGAAGACGA 530 597 899 Antisense
TGTGTGGATATTGCCGTTTCGTGAC 298 553 1028 Antisense
TTGTAGTCAGAGATTCCTCGGCGCG 336 705 1146 Antisense
GATTTTCATCGTATGCTGCTCTATA 445 429 1195 Antisense
AATGCGTGGTGGATCCGTTTCAACG 382 165 1254 Antisense
AACGCCATCTTCGATTCCAGAAACT 630 145 1275 Antisense
GAAACTCCAGCTTCTGGTTCTGCGG 573 357 1294 Antisense
ACCATCTCACCATATCGTCGAAGGC 704 85 1350 Antisense
Sequence Source Affymetrix Proprietary Database