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Cluster Members
Consensus/Exemplar
Group Members

GeneChip Array Information

Probe Set ID

185387_s_at

GeneChip Array

C. elegans Genome Array

Organism Common Name

Nematode

Probe Design Information

Transcript ID(Array Design)

affy.Ce.1749

Sequence Type

Exemplar sequence

Representative Public ID

Y53C10A.5 NCBI

Target Description

Y53C10A.5 /REP_DB=WormBase Gene ID /WP=CE22373 /TR=Q9XW52 /GB=CAA22139.1 /SUBMIT=HINXTON /CHR=1 /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_060635(11)

Transcript Assignments

Representative Transcript	Description	Matching Probes	Related Probesets by Grade
NM_060635 NCBI	Caenorhabditis elegans Y53C10A.5 (Y53C10A.5) mRNA, complete cds.	11/11	None
GENEFINDER00000000699 ENSEMBL	cdna:GeneFinder chromosome:CEL140:I:12006904:12010486:1	11/11	None
Y53C10A.5 ENSEMBL	cdna:known chromosome:CEL140:I:12006903:12010765:1 gene:Y53C10A.5	11/11	None

Annotation Notes

Cross Hybridizing mRNA	Matched Probes	Nature of Assignment	Related Probesets by Grade
SNAP00000000684	8/11	Cross Hyb Matching Probes	None

Genomic Alignment of Consensus/Exemplar Sequence

Assembly

Wormbase March 2004

Alignment(s)

Position	Identity	Coverage	Cytoband
chrI:12006834-12010417(+)	100.0	100.0

Public Domain and Genome References

Gene Title

Ensembl

Y53C10A.5

Entrez Gene

173080 Entrez gene

SwissProt

Q9XW52 EMBL-EBI

WormBase

CE22373 Wormbase

Functional Annotations

Ortholog

ID	Title	Organism
CANINE_2:CFAAFFX.17899.1.S1_AT	similar to ubiquitin-conjugating enzyme E2 variant 1	cfa
DROSOPHILA_2:1629215_AT		dm
DROSGENOME1:146536_AT		dm
HG-U133_PLUS_2:201003_X_AT	ubiquitin-conjugating enzyme variant Kua	hs
HG-U133A:201003_X_AT	ubiquitin-conjugating enzyme variant Kua	hs
HG-U133A_2:201003_X_AT	ubiquitin-conjugating enzyme variant Kua	hs
HG-U133B:223186_AT	ubiquitin-conjugating enzyme variant Kua	hs
HG-U133_PLUS_2:223186_AT	ubiquitin-conjugating enzyme variant Kua	hs
HU35KSUBC:RC_W47337_AT	ubiquitin-conjugating enzyme variant Kua	hs
U133_X3P:G11527782_3P_AT	ubiquitin-conjugating enzyme variant Kua	hs
MOUSE430_2:1427843_AT	expressed sequence AI840826	mm
MOE430A:1427843_AT	expressed sequence AI840826	mm
MOUSE430A_2:1427843_AT	expressed sequence AI840826	mm
MG-U74BV2:112373_AT	expressed sequence AI840826	mm
MG-U74BV2:107438_AT	expressed sequence AI840826	mm
MOE430A:1424411_AT	expressed sequence AI840826	mm
MOUSE430A_2:1424411_AT	expressed sequence AI840826	mm
MOUSE430_2:1424411_AT	expressed sequence AI840826	mm
MOE430A:1451341_S_AT	Expressed sequence AI840826 (AI840826), mRNA	mm
MOUSE430A_2:1451341_S_AT	Expressed sequence AI840826 (AI840826), mRNA	mm
MOUSE430_2:1451341_S_AT	Expressed sequence AI840826 (AI840826), mRNA	mm
MU19KSUBB:TC30793_AT	Expressed sequence AI840826 (AI840826), mRNA	mm
RG-U34B:RC_AA943564_AT	Kua homolog (predicted)	rn
RG-U34C:AA942829_AT	Kua homolog (predicted)	rn
RAE230A:1375341_AT	Kua homolog (predicted)	rn
RAT230_2:1375341_AT	Kua homolog (predicted)	rn

Protein Similarities

Method	ID	Description	E-Value
blast	CAA22139	Hypothetical protein Y53C10A.5 [Caenorhabditis elegans] ref\|NP_493036.1\| Y53C10A.5 [Caenorhabditis elegans]	0.0
blast	CAE68033	Hypothetical protein CBG13650 [Caenorhabditis briggsae]	1.0E-163
blast	AAI06555	Unknown (protein for IMAGE:7765075) [Xenopus laevis]	1.0E-84

Protein Domains

Trans Membrane
ID	Number Of Domains	Domain Boundaries
NP_493036.1	3	98-117,122-144,210-232
Y53C10A.5	3	98-117,122-144,210-232
GENEFINDER00000000699	3	98-117,122-144,210-232

Sequence

Target Sequence

>C. ELEGANS:185387_S_AT
atctgcttctcagctgggagtcatctatatgggtgtctgtactagtttcggcagtgctcg
gcataatgacagccgacttcgcatcaggacttgttcattgggcagctgatacatttggaa
gtgttgagacatggtttggacggtcttttatccgacctttccgagagcatcacgtcgatc
caactgcaattactcgacatgatatagttgaagtgaatggtgataattgtatgctttgtg
taggaccacttttatggattctgtatcaacaaatgacttatcaaagggatgctatcacac
aatgggcaacttttcattggtacatcttgttgttggggatctacgttgcgttgactaatc
agattcacaaatggtcgcatacatatttcgggcttccaacatgggttgttttcctgcaga
aagctcatattatcctgccaagaagtcatcataagatccatcatatttcgcctcacgcct
gctactactgtatcacgaccggatggctcaactggccattggagtatattggattctggc
gtaaaatggagtgggtggtgaccacagtgaccggtatgc

BLASTn GenBank NR

Probe Info

Probe Sequence(5'-3')	Probe X	Probe Y	Probe Interrogation Position	Strandedness
ATCTGCTTCTCAGCTGGGAGTCATC	29	35	350	Antisense
TACTAGTTTCGGCAGTGCTCGGCAT	545	643	389	Antisense
GCATAATGACAGCCGACTTCGCATC	591	307	410	Antisense
GACTTCGCATCAGGACTTGTTCATT	576	371	424	Antisense
ACCTTTCCGAGAGCATCACGTCGAT	587	87	504	Antisense
CACGTCGATCCAACTGCAATTACTC	478	199	520	Antisense
TGTTGTTGGGGATCTACGTTGCGTT	690	561	677	Antisense
TGGTCGCATACATATTTCGGGCTTC	260	553	721	Antisense
GAAAGCTCATATTATCCTGCCAAGA	610	359	768	Antisense
CTGCTACTACTGTATCACGACCGGA	312	235	828	Antisense
GTGGTGACCACAGTGACCGGTATGC	354	489	904	Antisense

Sequence Source

Affymetrix Proprietary Database

Description	Y53C10A.5 /REP_DB=WormBase Gene ID /WP=CE22373 /TR=Q9XW52 /GB=CAA22139.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster	6grp_highest_10_10 > 11 6grp_high1_10_10 > 01 4grp_highest_8_8 > 57 4grp_high_8_8 > 34 6grp_highest_nonorm > 76 6grp_total > 08 4grp_total > 46 6grp_high1_sub > De 6grp_total_sub > Decrease 4grp_rule_based > L1