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[193351_s_at] Human Machedo-Joseph disease protein 1 like

Description F28F8.6 /REP_DB=WormBase Gene ID /WP=CE09760 /TR=O17850 /GB=CAB03016.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Human Machedo-Joseph disease protein 1 like
Cluster 6grp_highest_10_10 > 89      6grp_high1_10_10 > 99      4grp_highest_8_8 > 01      4grp_high_8_8 > 45      6grp_highest_nonorm > 93      6grp_total > 98      4grp_total > 50      6grp_highest_sub > In      6grp_cgc > 78      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S5      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 87
1 2 3 4 range
A 295.6
(-3)
P 		324.5
(3)
P 		309.2
(-0.2)
P 		316.9
(1.4)
P 		29
B 273.6
(-0.8)
P 		324.3
(3)
P 		315.3
(2.3)
P 		243.6
(-3)
P 		81
C 285.8
(-3)
P 		330.3
(3)
P 		308.1
(0)
P 		294.1
(-1.9)
P 		45
avr 285
(-3) 		326.4
(3) 		310.9
(0.8) 		284.9
(-3) 		42

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 585
1 2 3 4 5 6 range
A 341.2
(-2.5)
P 		320.3
(-2.8)
P 		310.1
(-3)
P 		372.7
(-2)
P 		669.1
(3)
P 		535.9
(0.8)
P 		359
B 275.4
(-2.9)
P 		263.8
(-3)
P 		263.7
(-3)
P 		431.5
(-1.2)
P 		815.6
(3)
P 		731.2
(2.1)
P 		552
C 230.2
(-3)
P 		334
(-1.6)
P 		307.9
(-1.9)
P 		384.5
(-0.9)
P 		497.9
(0.7)
P 		662.8
(3)
P 		433
avr 282.3
(-3) 		306
(-2.6) 		293.9
(-2.8) 		396.2
(-1.2) 		660.9
(3) 		643.3
(2.7) 		379
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 61
1 2 3 4 range
A 107.6
(3)
P 		70.4
(-0.6)
P 		80.8
(0.4)
P 		46.4
(-3)
P 		61
B 87.2
(3)
P 		80.1
(1.8)
P 		73.1
(0.6)
P 		51.9
(-3)
P 		35
C 94.6
(1.7)
P 		95
(1.7)
P 		107.4
(3)
P 		49.6
(-3)
P 		58
avr 96.5
(3) 		81.8
(1.1) 		87.1
(1.8) 		49.3
(-3) 		47

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 269
1 2 3 4 5 6 range
A 62.9
(-3)
P 		113.9
(-0.8)
P 		67.5
(-2.8)
P 		94.5
(-1.6)
P 		201.9
(3)
P 		130.5
(-0.1)
P 		139
B 95.8
(-2.3)
P 		87.8
(-2.5)
P 		64
(-3)
P 		114.3
(-1.9)
P 		331.4
(3)
P 		272.7
(1.7)
P 		267
C 85.3
(-2.7)
P 		101.9
(-2)
P 		78.4
(-3)
P 		77.3
(-3)
P 		161.1
(0.5)
P 		221.9
(3)
P 		145
avr 81.3
(-2.6) 		101.2
(-1.8) 		70
(-3) 		95.4
(-2.1) 		231.5
(3) 		208.4
(2.1) 		162
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193351_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14449
Sequence Type Exemplar sequence
Representative Public ID F28F8.6 NCBI
Target Description F28F8.6 /REP_DB=WormBase Gene ID /WP=CE09760 /TR=O17850 /GB=CAB03016.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Human Machedo-Joseph disease protein 1 like
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_074472(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074472 NCBI Caenorhabditis elegans human ATX (ataxin) related family member (atx-3) (atx-3) mRNA, complete cds. 11/11 None
SNAP00000036077 ENSEMBL cdna:SNAP chromosome:CEL140:V:15578266:15579462:-1 11/11 None
GENEFINDER00000036087 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:15578266:15579462:-1 11/11 None
F28F8.6 ENSEMBL cdna:known chromosome:CEL140:V:15578103:15579471:-1 gene:F28F8.6 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
chrV:15578265-15579462(-) 100.0 100.0
Public Domain and Genome References
Gene Title Human Machedo-Joseph disease protein 1 like
Gene Symbol atx-3
Ensembl F28F8.6
Entrez Gene 180049 Entrez gene
SwissProt O17850 EMBL-EBI
WormBase CE09760 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:251904_AT josephin family protein at
CANINE:1605478_AT similar to ataxin 3 isoform 1 cfa
CANINE_2:CFA.16949.1.S1_AT similar to ataxin 3 isoform 1 cfa
CANINE_2:CFAAFFX.12065.1.S1_AT similar to ataxin 3 isoform 1 cfa
CANINE_2:CFAAFFX.17009.1.S1_S_AT similar to ataxin 3 isoform 1 cfa
CHICKEN:GGA.12408.1.S2_AT ataxin 3 gga
CHICKEN:GGA.12408.2.S1_AT ataxin 3 gga
CHICKEN:GGA.12408.3.S1_A_AT ataxin 3 gga
HU35KSUBA:HUM_ALU_AT ataxin 3 hs
HU35KSUBB:HUM_ALU_AT ataxin 3 hs
HU35KSUBC:HUM_ALU_AT ataxin 3 hs
HU35KSUBD:HUM_ALU_AT ataxin 3 hs
HUGENEFL:HUM_ALU_AT ataxin 3 hs
HC-G110:HUM_ALU_AT ataxin 3 hs
HU35KSUBD:RC_AA233334_S_AT ataxin 3 hs
HUGENEFL:S75313_AT ataxin 3 hs
HG-U133A:205416_S_AT ataxin 3 hs
HG-U133_PLUS_2:205416_S_AT ataxin 3 hs
HG-U133A_2:205416_S_AT ataxin 3 hs
U133_X3P:G13518018_3P_A_AT ataxin 3 hs
U133_X3P:HS.66521.0.S1_3P_A_AT ataxin 3 hs
U133_X3P:HS.169325.0.A1_3P_AT ataxin 3 hs
HG-U133A_2:205415_S_AT ataxin 3 hs
HG-FOCUS:205415_S_AT ataxin 3 hs
HG-U133_PLUS_2:205415_S_AT ataxin 3 hs
HG-U133A:205415_S_AT ataxin 3 hs
HG-U133A_2:216657_AT ataxin 3 hs
HG-U133_PLUS_2:216657_AT ataxin 3 hs
HG-U133A:216657_AT ataxin 3 hs
HG-U95AV2:36819_AT ataxin 3 hs
HG-U95AV2:36820_R_AT ataxin 3 hs
HG-U95AV2:31489_AT Ataxin 3 hs
HU35KSUBA:U63332_AT Ataxin 3 hs
HUGENEFL:U63332_AT Ataxin 3 hs
HG-U133_PLUS_2:233182_X_AT Ataxin 3 hs
HG-U133B:233182_X_AT Ataxin 3 hs
U133_X3P:HS.169325.0.S1_3P_AT Ataxin 3 hs
U133_X3P:HS.127712.0.S1_3P_X_AT Ataxin 3 hs
U133_X3P:233182_3P_X_AT Ataxin 3 hs
HG-U133A_2:217321_X_AT Ataxin 3 hs
HG-U133_PLUS_2:217321_X_AT Ataxin 3 hs
HG-U133A:217321_X_AT Ataxin 3 hs
HG-U95C:59137_I_AT Ataxin 3 hs
HG-U95C:59141_R_AT Ataxin 3 hs
HG-U133_PLUS_2:235240_AT Ataxin 3 hs
HG-U133B:235240_AT Ataxin 3 hs
HG-U133_PLUS_2:238723_AT Ataxin 3 hs
HG-U133B:238723_AT Ataxin 3 hs
HG-U95C:56787_AT Ataxin 3 hs
HG-U95E:82526_AT Ataxin 3 hs
HU35KSUBC:RC_N46999_AT Ataxin 3 hs
U133_X3P:HS.142043.0.A1_3P_AT Ataxin 3 hs
U133_X3P:HS.46648.0.A1_3P_AT Ataxin 3 hs
MG-U74BV2:164151_AT Machado-Joseph disease (spinocerebellar ataxia 3, olivopontocerebellar ataxia 3, autosomal dominant, ataxin 3) homolog (human) mm
MG-U74CV2:167734_AT Machado-Joseph disease (spinocerebellar ataxia 3, olivopontocerebellar ataxia 3, autosomal dominant, ataxin 3) homolog (human) mm
MOE430B:1434408_AT Machado-Joseph disease (spinocerebellar ataxia 3, olivopontocerebellar ataxia 3, autosomal dominant, ataxin 3) homolog (human) mm
MOUSE430_2:1434408_AT Machado-Joseph disease (spinocerebellar ataxia 3, olivopontocerebellar ataxia 3, autosomal dominant, ataxin 3) homolog (human) mm
MOE430B:1440855_AT Machado-Joseph disease (spinocerebellar ataxia 3, olivopontocerebellar ataxia 3, autosomal dominant, ataxin 3) homolog (human) mm
MOUSE430_2:1440855_AT Machado-Joseph disease (spinocerebellar ataxia 3, olivopontocerebellar ataxia 3, autosomal dominant, ataxin 3) homolog (human) mm
RG-U34A:Y12319CDS_AT ataxin 3 rn
RAE230A:1369826_AT ataxin 3 rn
RAT230_2:1369826_AT ataxin 3 rn
Protein Similarities
Method ID Description E-Value
blast CAB03016 Hypothetical protein F28F8.6 [Caenorhabditis elegans] ref|NP_506873.1| human ATX (ataxin) related family member (atx-3) [Caenorhabditis elegans] sp|O17850|MJDL_CAEEL Machado-Joseph disease-like protein 1.0E-162
blast CAE71633 Hypothetical protein CBG18600 [Caenorhabditis briggsae] 1.0E-95
blast NP_001016389 ataxin 3 [Xenopus tropicalis] 4.0E-42
Protein Domains
Database ID Description E-Value
Pfam IPR003903 EMBL-EBI Ubiquitin interacting motif 2.1E-4
Pfam IPR003903 EMBL-EBI Ubiquitin interacting motif 0.058
Pfam IPR006155 EMBL-EBI Machado-Joseph disease protein MJD 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:193351_S_AT
cactggtttgtgctccgaaaattcggaaatcaatggttcgagctgaattcggtgaaccgt
gggcccaaattgctctctgacacttatgttagcatgttcttgcatcaagtgtcgtcggaa
ggttattcaatcttcgtggtgcagggagttttgccaagatccgatgcagacgatctcatc
tcgctatgcccagttgtaccgccaaaagttacaccgaaaaaggagcagaagctggagaaa
gtcatgacaaaattcttcaataccgtcggaaaacgacttggcggtggaagcggtgctcct
ccggattctcaagaagaaaaagatttggcgatagcttttgcaatgtctatggaaacaaag
gatggctctgaagtgtctcgaagttccgctgaaatcgatgaagaaaatctcagaaaggcg
attgagctgagccaggctccaggaccatcagaaccggctgagataccgctattgactcgt
tctcgatcttcgac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CACTGGTTTGTGCTCCGAAAATTCG 681 93 361 Antisense
AATTGCTCTCTGACACTTATGTTAG 273 179 428 Antisense
GGTTATTCAATCTTCGTGGTGCAGG 459 505 481 Antisense
GGGAGTTTTGCCAAGATCCGATGCA 364 495 504 Antisense
GATGCAGACGATCTCATCTCGCTAT 248 413 523 Antisense
TGCTCCTCCGGATTCTCAAGAAGAA 3 583 654 Antisense
AAAGGATGGCTCTGAAGTGTCTCGA 443 121 717 Antisense
AGTGTCTCGAAGTTCCGCTGAAATC 579 59 732 Antisense
GCGATTGAGCTGAGCCAGGCTCCAG 559 291 778 Antisense
CCGGCTGAGATACCGCTATTGACTC 653 265 814 Antisense
TATTGACTCGTTCTCGATCTTCGAC 279 661 830 Antisense
Sequence Source Affymetrix Proprietary Database