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[192902_at] KH domain family of RNA binding proteins.

Description M7.3 /REP_DB=WormBase Gene ID /WP=CE28064 /TR=Q21593 /GB=CAA92750.2 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=KH domain family of RNA binding proteins.
Cluster 6grp_highest_10_10 > 17      6grp_high1_10_10 > 61      4grp_highest_8_8 > 19      4grp_high_8_8 > 63      6grp_highest_nonorm > 90      6grp_total > 61      4grp_total > 56      6grp_highest_sub > 04      6grp_cgc > 84      6grp_high1_sub > 04      6grp_cgc_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 58
1 2 3 4 range
A 104.7
(-3)
P 		116.9
(-0.9)
P 		140
(3)
P 		134.4
(2)
P 		35
B 154.7
(3)
P 		137
(1.2)
P 		139.8
(1.5)
P 		96.7
(-3)
P 		58
C 106.7
(-3)
P 		125.8
(0.3)
P 		141.5
(3)
P 		133.7
(1.7)
P 		35
avr 122
(-2.9) 		126.6
(-1.4) 		140.4
(3) 		121.6
(-3) 		19

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 164
1 2 3 4 5 6 range
A 119.7
(-1.4)
P 		165.1
(0.4)
P 		202.3
(1.8)
P 		233
(3)
P 		131.7
(-0.9)
P 		77.8
(-3)
P 		155
B 146.4
(-0.7)
P 		94.7
(-2.9)
P 		177.6
(0.6)
P 		232.9
(3)
P 		139.9
(-1)
P 		93.5
(-3)
P 		139
C 109.1
(-2.5)
P 		155.8
(-0.5)
P 		181.3
(0.5)
P 		242.2
(3)
P 		127.9
(-1.7)
P 		95.7
(-3)
P 		147
avr 125.1
(-1.5) 		138.5
(-1) 		187.1
(1) 		236
(3) 		133.2
(-1.2) 		89
(-3) 		147
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 30
1 2 3 4 range
A 38.1
(3)
P 		25.4
(-1.1)
P 		36.6
(2.5)
P 		19.7
(-3)
P 		18
B 49.3
(3)
P 		33.8
(-0.2)
P 		32.4
(-0.5)
P 		20.6
(-3)
P 		29
C 35.3
(-0.1)
P 		36.2
(0.1)
P 		49.3
(3)
P 		22.5
(-3)
P 		27
avr 40.9
(3) 		31.8
(0.3) 		39.4
(2.6) 		20.9
(-3) 		20

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 43
1 2 3 4 5 6 range
A 22.1
(-2.5)
P 		58.7
(2.9)
P 		44.1
(0.8)
P 		59.1
(3)
P 		39.7
(0.1)
P 		18.9
(-3)
P 		40
B 51
(0.9)
P 		31.5
(-3)
P 		43.1
(-0.7)
P 		61.7
(3)
P 		56.8
(2)
P 		34.9
(-2.3)
P 		30
C 40.4
(0)
P 		47.5
(2.6)
P 		46.1
(2.1)
P 		48.7
(3)
P 		41.4
(0.4)
P 		32
(-3)
P 		17
avr 37.8
(-1) 		45.9
(0.7) 		44.4
(0.4) 		56.5
(3) 		46
(0.7) 		28.6
(-3) 		28
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192902_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9893
Sequence Type Exemplar sequence
Representative Public ID M7.3 NCBI
Target Description M7.3 /REP_DB=WormBase Gene ID /WP=CE28064 /TR=Q21593 /GB=CAA92750.2 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=KH domain family of RNA binding proteins.
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_069666(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069666 NCBI Caenorhabditis elegans BiCaudal C (Drosophila) homolog family member (bcc-1) (bcc-1) mRNA, complete cds. 11/11 A 
GENEFINDER00000010400 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11086163:11089664:-1 10/11 None
M7.3 ENSEMBL cdna:known chromosome:CEL140:IV:11086062:11092524:-1 gene:M7.3 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000010384 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:11088944-11092813(-) 100.0 100.0
Public Domain and Genome References
Gene Title KH domain family of RNA binding proteins.
Gene Symbol bcc-1
Ensembl M7.3
Entrez Gene 178008 Entrez gene
SwissProt Q21593 EMBL-EBI
WormBase CE28064 Wormbase
Functional Annotations
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 CAA92750 Hypothetical protein M7.3 [Caenorhabditis elegans] ref|NP_502067.1| BiCaudal C (Drosophila) homolog family member (bcc-1) [Caenorhabditis elegans] 0.0
blast CAE61995 Hypothetical protein CBG06003 [Caenorhabditis briggsae] 0.0
blast CAE61995 Hypothetical protein CBG06003 [Caenorhabditis briggsae] 1.0E-179
blast T23821 hypothetical protein M7.4 - Caenorhabditis elegans 3.0E-98
blast T23821 hypothetical protein M7.4 - Caenorhabditis elegans 5.0E-98
Protein Domains
Database ID Description E-Value
Pfam IPR004087 EMBL-EBI KH 1.3E-12
Pfam IPR001660 EMBL-EBI Sterile alpha motif SAM 2.6E-9
Pfam IPR004087 EMBL-EBI KH 1.3E-12
Pfam IPR001660 EMBL-EBI Sterile alpha motif SAM 2.6E-9
Sequence
Target Sequence 
>C. ELEGANS:192902_AT
gaatcagcacgaacgcttgttttgaatagtttacagataaaaaaagagcgagtttcgttg
aaaatggaacttcatcattctcttcactcacacattattggcaagggaggacgtggaatt
cagaaagtgatgaaaatgacgtcatgccatatacattttccagattccaataaatattca
gattcgaacaaaagcgatcaagtttctatatccggaacacctgttaatgtatttgaagct
ttaaaacacttgaggtcaatgtgtccgttgacagtctacatgaagcttccctggtataat
ccaggtcaacctgatctacgtcctctcatgtcacaaatggatttagatgtttctgttgaa
cagaatatttatagtttggcaattaaaatgacaggaagtcaagacgccagtgtattattt
gcaattcgattagttttacatcactttttattaacagaagaatatttgaacatttccact
caagttttggccagaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATCAGCACGAACGCTTGTTTTGA 701 327 367 Antisense
CATTCTCTTCACTCACACATTATTG 293 217 442 Antisense
TGCCATATACATTTTCCAGATTCCA 512 585 511 Antisense
AAGTTTCTATATCCGGAACACCTGT 220 157 566 Antisense
AACACTTGAGGTCAATGTGTCCGTT 569 133 611 Antisense
ATGTGTCCGTTGACAGTCTACATGA 79 51 625 Antisense
GTCTACATGAAGCTTCCCTGGTATA 636 469 640 Antisense
TCCAGGTCAACCTGATCTACGTCCT 160 253 666 Antisense
TACGTCCTCTCATGTCACAAATGGA 471 647 683 Antisense
GACGCCAGTGTATTATTTGCAATTC 387 381 769 Antisense
TTTCCACTCAAGTTTTGGCCAGAGA 363 667 839 Antisense
Sequence Source Affymetrix Proprietary Database