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Cluster Members
Consensus/Exemplar
Group Members

GeneChip Array Information

Probe Set ID

173828_s_at

GeneChip Array

C. elegans Genome Array

Organism Common Name

Nematode

Probe Design Information

Transcript ID(Array Design)

affy.Ce.25208

Sequence Type

Exemplar sequence

Representative Public ID

CEK003H7R NCBI

Target Description

CEK003H7R_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=K11C4.5 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D27189 /WB_GENE_ID=K11C4.5 /WP=CE12116 /CHR=5 /FEA=Genomic Cluster /GEN=unc-68 /DEF=ryanodine receptor; C.elegans cDNA clone yk3h7 : 3prime end, single read.

Cluster Evidence

This cluster is supported by a Genomic Cluster.

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_072352(11)

Transcript Assignments

Representative Transcript	Description	Matching Probes	Related Probesets by Grade
NM_072352 NCBI	Caenorhabditis elegans UNCoordinated family member (unc-68) (unc-68) mRNA, complete cds.	11/11	A
SNAP00000040597 ENSEMBL	cdna:SNAP chromosome:CEL140:V:6904609:6910038:-1	11/11	None
K11C4.5 ENSEMBL	cdna:known chromosome:CEL140:V:6904281:6926786:-1 gene:K11C4.5	11/11	A

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:6904309-6926788(-)	99.92	100.0

Public Domain and Genome References

Gene Title

ryanodine receptor

Gene Symbol

unc-68

Ensembl

K11C4.5

Entrez Gene

179080 Entrez gene

SwissProt

Q94279 EMBL-EBI

WormBase

CE12116 Wormbase

Functional Annotations

Ortholog

ID	Title	Organism
CANINE:1606135_AT	ryanodine receptor 2 (cardiac)	cfa
CANINE:1604423_AT	ryanodine receptor 2 (cardiac)	cfa
CANINE:1587427_AT	ryanodine receptor 2 (cardiac)	cfa
CANINE:1582933_AT	ryanodine receptor 2 (cardiac)	cfa
CANINE_2:CFA.269.1.A1_AT	ryanodine receptor 2 (cardiac)	cfa
CANINE_2:CFA.3475.1.S1_S_AT	ryanodine receptor 2 (cardiac)	cfa
CANINE_2:CFA.9100.1.A1_AT	ryanodine receptor 2 (cardiac)	cfa
CANINE_2:CFAAFFX.15723.1.S1_S_AT	ryanodine receptor 2 (cardiac)	cfa
CANINE_2:CFAAFFX.15743.1.S1_AT	ryanodine receptor 2 (cardiac)	cfa
CANINE:1582932_AT	ryanodine receptor 2 (cardiac)	cfa
DROSOPHILA_2:1633452_A_AT	Ryanodine receptor 44F	dm
DROSGENOME1:143650_AT	Ryanodine receptor 44F	dm
CHICKEN:GGAAFFX.6834.2.S1_S_AT	similar to Ryanodine receptor 2 (Cardiac muscle-type ryanodine receptor) (RyR2) (RYR-2) (Cardiac muscle ryanodine receptor-calcium release channel) (hRYR-2)	gga
CHICKEN:GGAAFFX.6834.4.S1_S_AT	similar to Ryanodine receptor 2 (Cardiac muscle-type ryanodine receptor) (RyR2) (RYR-2) (Cardiac muscle ryanodine receptor-calcium release channel) (hRYR-2)	gga
HG-U133_PLUS_2:207557_S_AT	ryanodine receptor 2 (cardiac)	hs
HG-U133A:207557_S_AT	ryanodine receptor 2 (cardiac)	hs
HG-FOCUS:207557_S_AT	ryanodine receptor 2 (cardiac)	hs
HG-U133A_2:207557_S_AT	ryanodine receptor 2 (cardiac)	hs
HU35KSUBA:X98330_AT	ryanodine receptor 2 (cardiac)	hs
HUGENEFL:X98330_AT	ryanodine receptor 2 (cardiac)	hs
HU35KSUBC:RC_F02154_S_AT	ryanodine receptor 2 (cardiac)	hs
U133_X3P:G4506756_3P_S_AT	ryanodine receptor 2 (cardiac)	hs
U133_X3P:HS.332699.0.A1_3P_AT	ryanodine receptor 2 (cardiac)	hs
HG-U133A_2:214044_AT	ryanodine receptor 2 (cardiac)	hs
HG-U133_PLUS_2:214044_AT	ryanodine receptor 2 (cardiac)	hs
HG-U133A:214044_AT	ryanodine receptor 2 (cardiac)	hs
HG-U95AV2:38263_AT	ryanodine receptor 2 (cardiac)	hs
HG-U133_PLUS_2:243447_AT	Ryanodine receptor 2 (cardiac)	hs
HG-U133B:243447_AT	Ryanodine receptor 2 (cardiac)	hs
HG-U95B:42351_AT	Ryanodine receptor 2 (cardiac)	hs
HG-U95E:78861_F_AT	Ryanodine receptor 2 (cardiac)	hs
HU35KSUBD:RC_W86038_AT	Ryanodine receptor 2 (cardiac)	hs
U133_X3P:HS.109514.0.A1_3P_AT	Ryanodine receptor 2 (cardiac)	hs
MOUSE430_2:1421126_AT	ryanodine receptor 2, cardiac	mm
MOE430A:1421126_AT	ryanodine receptor 2, cardiac	mm
MOUSE430A_2:1421126_AT	ryanodine receptor 2, cardiac	mm
MU11KSUBB:X83933_S_AT	ryanodine receptor 2, cardiac	mm
MG-U74AV2:102653_AT	ryanodine receptor 2, cardiac	mm
MOE430A:1450123_AT	ryanodine receptor 2, cardiac	mm
MOUSE430A_2:1450123_AT	ryanodine receptor 2, cardiac	mm
MOUSE430_2:1450123_AT	ryanodine receptor 2, cardiac	mm
MG-U74CV2:140190_AT	Ryanodine receptor 2, cardiac (Ryr2), mRNA	mm
MOUSE430_2:1445498_AT	Ryanodine receptor 2, cardiac (Ryr2), mRNA	mm
MOE430B:1445498_AT	Ryanodine receptor 2, cardiac (Ryr2), mRNA	mm

Gene Ontology

GO Biological Process (view graph)
ID	Description	Evidence	Links
6811	ion transport	inferred from electronic annotation	QuickGO AmiGO
6816	calcium ion transport	inferred from electronic annotation	QuickGO AmiGO
9058	biosynthesis	inferred from electronic annotation	QuickGO AmiGO
GO Cellular Component (view graph)
ID	Description	Evidence	Links
16020	membrane	inferred from electronic annotation	QuickGO AmiGO
GO Molecular Function (view graph)
ID	Description	Evidence	Links
4420	hydroxymethylglutaryl-CoA reductase (NADPH) activity	inferred from electronic annotation	QuickGO AmiGO
5216	ion channel activity	inferred from electronic annotation	QuickGO AmiGO
5262	calcium channel activity	inferred from electronic annotation	QuickGO AmiGO
5509	calcium ion binding	inferred from electronic annotation	QuickGO AmiGO

Protein Similarities

Method	ID	Description	E-Value
blast	AAB18318	Uncoordinated protein 68 [Caenorhabditis elegans] ref\|NP_504753.1\| UNCoordinated family member (unc-68) [Caenorhabditis elegans]	0.0
blast	CAE71970	Hypothetical protein CBG19042 [Caenorhabditis briggsae]	0.0
blast	BAA08309.1	ryanodine receptor [Caenorhabditis elegans]	0.0

Protein Domains

Database	ID	Description	E-Value
scop	a.4.5.Forkhead DNA-binding domain	All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; Forkhead DNA-binding domain	1.5
Pfam	IPR005821 EMBL-EBI	Ion transport protein	2.1E-12
Pfam	IPR002048 EMBL-EBI	Calcium-binding EF-hand	1.8E-6
Pfam	IPR002048 EMBL-EBI	Calcium-binding EF-hand	0.047
Pfam	IPR003608 EMBL-EBI	MIR domain	5.7E-4
Pfam	IPR003608 EMBL-EBI	MIR domain	1.7E-7
Pfam	IPR003608 EMBL-EBI	MIR domain	2.0E-10
Pfam	IPR003032 EMBL-EBI	Ryanodine receptor Ryr	1.1E-26
Pfam	IPR003032 EMBL-EBI	Ryanodine receptor Ryr	2.3E-24
Pfam	IPR003032 EMBL-EBI	Ryanodine receptor Ryr	4.5E-23
Pfam	IPR003032 EMBL-EBI	Ryanodine receptor Ryr	2.8E-14
Pfam	IPR003877 EMBL-EBI	SPla/RYanodine receptor SPRY	1.1E-33
Pfam	IPR003877 EMBL-EBI	SPla/RYanodine receptor SPRY	1.9E-40
Pfam	IPR003877 EMBL-EBI	SPla/RYanodine receptor SPRY	1.5E-28
Pfam	IPR009460 EMBL-EBI	Ryanodine Receptor TM 4-6	1.0E-126
Pfam	IPR000699 EMBL-EBI	Intracellular calcium-release channel	1.1E-93
Pfam	IPR000699 EMBL-EBI	Intracellular calcium-release channel	3.2E-95
Pfam	IPR005821 EMBL-EBI	Ion transport protein	2.1E-12
Pfam	IPR002048 EMBL-EBI	Calcium-binding EF-hand	1.8E-6
Pfam	IPR002048 EMBL-EBI	Calcium-binding EF-hand	0.047
Pfam	IPR009460 EMBL-EBI	Ryanodine Receptor TM 4-6	1.0E-126

Trans Membrane
ID	Number Of Domains	Domain Boundaries
NP_504753.1	6	4473-4495,4658-4675,4721-4743,4859-4881,4904-4926,4986-5005
K11C4.5	6	4473-4495,4658-4675,4721-4743,4859-4881,4904-4926,4986-5005
SNAP00000040597	6	757-779,942-959,1005-1027,1143-1165,1188-1210,1270-1289

Sequence

Target Sequence

>C. ELEGANS:173828_S_AT
atgcagggtttgatcatcgacgctttcggagagcttcgtgatcaacaagaatctgcaact
gagaagctcgagtcatcatgtttcatttgcgacatcggcaaagaaacgtttgatcggatg
cctcgaggcttcgaaattcacaccaccaaagagcacaactttgccaattaccggttcttc
ttacaacatctggtcaacaaagacgaaacagagtacactggtcaagaaacgtacgtacgt
gagaagtacgataatcgagactgggacttcttccctgtcggagagtgtttcgtcaaacag
tacgaggatcaattgctcca

BLASTn GenBank NR

Probe Info

Probe Sequence(5'-3')	Probe X	Probe Y	Probe Interrogation Position	Strandedness
ATGCAGGGTTTGATCATCGACGCTT	232	43	15011	Antisense
ATCGACGCTTTCGGAGAGCTTCGTG	617	33	15026	Antisense
GAGCTTCGTGATCAACAAGAATCTG	650	387	15041	Antisense
CAAGAATCTGCAACTGAGAAGCTCG	126	185	15056	Antisense
GAAGCTCGAGTCATCATGTTTCATT	417	343	15073	Antisense
GTTTGATCGGATGCCTCGAGGCTTC	335	451	15118	Antisense
TCGAGGCTTCGAAATTCACACCACC	585	601	15133	Antisense
GTTCTTCTTACAACATCTGGTCAAC	666	443	15184	Antisense
ATCGAGACTGGGACTTCTTCCCTGT	346	35	15264	Antisense
TTCCCTGTCGGAGAGTGTTTCGTCA	423	695	15281	Antisense
AACAGTACGAGGATCAATTGCTCCA	31	137	15306	Antisense

Sequence Source

Affymetrix Proprietary Database

Description	CEK003H7R_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=K11C4.5 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D27189 /WB_GENE_ID=K11C4.5 /WP=CE12116 /CHR=5 /FEA=Genomic Cluster /GEN=unc-68 /DEF=ryanodine receptor; C.elegans cDNA clone yk3h7 : 3prime end, single read.
Cluster	6grp_highest_10_10 > 43 6grp_high1_10_10 > 23 4grp_highest_8_8 > 42 4grp_high_8_8 > 49 6grp_highest_nonorm > 22 6grp_total > 12 4grp_total > 54 6grp_highest_sub > 02 6grp_cgc > 62 6grp_high1_sub > 02 6grp_cgc_sub > 02 6grp_total_sub > Hat