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Cluster Members
Consensus/Exemplar

GeneChip Array Information

Probe Set ID

178851_at

GeneChip Array

C. elegans Genome Array

Organism Common Name

Nematode

Probe Design Information

Transcript ID(Array Design)

affy.Ce.8898

Sequence Type

Exemplar sequence

Representative Public ID

B0564.2 NCBI

Target Description

B0564.2 /REP_DB=WormBase Gene ID /WP=CE05176 /TR=Q17527 /GB=CAA97764.1 /SUBMIT=HINXTON /CHR=4 /FEA=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_070121(11)

Transcript Assignments

Representative Transcript	Description	Matching Probes	Related Probesets by Grade
NM_070121 NCBI	Caenorhabditis elegans B0564.2 (B0564.2) mRNA, complete cds.	11/11	None
SNAP00000043353 ENSEMBL	cdna:SNAP chromosome:CEL140:IV:13105310:13109592:1	11/11	None
GENEFINDER00000043372 ENSEMBL	cdna:GeneFinder chromosome:CEL140:IV:13107629:13108108:1	11/11	None
B0564.2 ENSEMBL	cdna:known chromosome:CEL140:IV:13107629:13108159:1 gene:B0564.2	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
chrIV:13107634-13108165(+)	100.0	100.0

Public Domain and Genome References

Gene Title

Ensembl

B0564.2

Entrez Gene

182043 Entrez gene

SwissProt

Q17527 EMBL-EBI

WormBase

CE05176 Wormbase

Functional Annotations

Ortholog

ID	Title	Organism
ATH1-121501:254479_AT	expressed protein	at
CANINE:1606167_AT	similar to calpain, small subunit 1	cfa
CANINE_2:CFA.3185.1.S1_AT	similar to calpain, small subunit 1	cfa
CANINE_2:CFA.3185.1.S1_S_AT	similar to calpain, small subunit 1	cfa
CANINE_2:CFAAFFX.10941.1.S1_AT	similar to calpain, small subunit 1	cfa
DROSOPHILA_2:1625989_AT		dm
DROSGENOME1:154794_AT		dm
MG-U74BV2:112813_AT	expressed sequence AI839550	mm
MOE430B:1455390_AT	expressed sequence AI839550	mm
MOUSE430_2:1455390_AT	expressed sequence AI839550	mm
MU19KSUBB:TC26936_AT	Expressed sequence AI839550, mRNA (cDNA clone MGC:37102 IMAGE:4952089)	mm
MU19KSUBB:TC26936_G_AT	Expressed sequence AI839550, mRNA (cDNA clone MGC:37102 IMAGE:4952089)	mm
MU19KSUBB:TC26937_AT	Expressed sequence AI839550, mRNA (cDNA clone MGC:37102 IMAGE:4952089)	mm
RG-U34C:RC_AA819356_AT	similar to hypothetical protein MGC15677	rn
RG-U34C:RC_AI176650_AT	similar to hypothetical protein MGC15677	rn
RAE230A:1372792_AT	similar to hypothetical protein MGC15677	rn
RAT230_2:1372792_AT	similar to hypothetical protein MGC15677	rn

Protein Similarities

Method	ID	Description	E-Value
blast	CAH04641	Hypothetical protein B0564.11 [Caenorhabditis elegans] ref\|NP_001021278.1\| B0564.11 [Caenorhabditis elegans]	1.0E-158
blast	CAA97764	Hypothetical protein B0564.2 [Caenorhabditis elegans] ref\|NP_502522.1\| B0564.2 [Caenorhabditis elegans]	3.0E-90
blast	CAA97764	Hypothetical protein B0564.2 [Caenorhabditis elegans] ref\|NP_502522.1\| B0564.2 [Caenorhabditis elegans]	1.0E-81
blast	CAA97764	Hypothetical protein B0564.2 [Caenorhabditis elegans] ref\|NP_502522.1\| B0564.2 [Caenorhabditis elegans]	7.0E-81
blast	CAE58654	Hypothetical protein CBG01823 [Caenorhabditis briggsae]	1.0E-74
blast	CAE58654	Hypothetical protein CBG01823 [Caenorhabditis briggsae]	2.0E-74
blast	CAE58654	Hypothetical protein CBG01823 [Caenorhabditis briggsae]	4.0E-74
blast	NP_001005390	calpain, small subunit 1 [Danio rerio] gb\|AAH71457.1\| Calpain, small subunit 1 [Danio rerio]	3.0E-30

Protein Domains

Database	ID	Description	E-Value
Pfam	IPR005123 EMBL-EBI	2OG-Fe(II) oxygenase superfamily	8.4E-5
Pfam	IPR005123 EMBL-EBI	2OG-Fe(II) oxygenase superfamily	8.4E-5

Sequence

Target Sequence

>C. ELEGANS:178851_AT
aagttcatcgtcaaaagcgctccagcgacgatgatctatattccgaattggattgacgag
gaagaggagaacctctacaaatcatgcatcgagaacgcaccacaaccaaaatggcgggtt
ctcgcaaatcggcggctccaaaattacggaggagtcgtgggaaaaacggctctcattcca
actgatgattttccagtggaactgaaatacttgatgaccaaaatcaacgatctcgggatt
ttcaaaaatccagtcaaccacgttctggtgaacgagtatgaagctggtcagggaatcatg
ccccatacagatggtcctgctttccatcgaatcgtcactacagtaaccctgggatctcat
tgtctt

BLASTn GenBank NR

Probe Info

Probe Sequence(5'-3')	Probe X	Probe Y	Probe Interrogation Position	Strandedness
AAGTTCATCGTCAAAAGCGCTCCAG	284	157	49	Antisense
GCGCTCCAGCGACGATGATCTATAT	204	287	65	Antisense
GGAGAACCTCTACAAATCATGCATC	426	519	114	Antisense
AAATGGCGGGTTCTCGCAAATCGGC	179	119	157	Antisense
CAAATCGGCGGCTCCAAAATTACGG	599	189	173	Antisense
AACGGCTCTCATTCCAACTGATGAT	162	143	213	Antisense
AAATCCAGTCAACCACGTTCTGGTG	196	117	294	Antisense
GCTGGTCAGGGAATCATGCCCCATA	391	295	331	Antisense
GCCCCATACAGATGGTCCTGCTTTC	546	281	348	Antisense
TCGAATCGTCACTACAGTAACCCTG	663	599	375	Antisense
AGTAACCCTGGGATCTCATTGTCTT	537	61	390	Antisense

Sequence Source

Affymetrix Proprietary Database

Description	B0564.2 /REP_DB=WormBase Gene ID /WP=CE05176 /TR=Q17527 /GB=CAA97764.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster	6grp_highest_10_10 > 68 6grp_high1_10_10 > 95 4grp_highest_8_8 > 22 4grp_high_8_8 > 06 6grp_highest_nonorm > 92 6grp_total > 86 4grp_total > 01 6grp_highest_sub > In 6grp_high1_sub > In 6grp_total_sub > Increase 6grp_rule_based > S6 4grp_rule_based > L4