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[181269_at]

Description Y39A1B.3 /REP_DB=WormBase Gene ID /WP=CE24223 /TR=Q9U2M1 /GB=CAA16340.2 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 45      4grp_total > 13      6grp_cgc > 44      6grp_cgc_sub > 02      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 165
1 2 3 4 range
A 134.8
(0.9)
M 		134.9
(0.9)
A 		55.8
(-3)
A 		178.5
(3)
P 		123
B 142.6
(0.7)
P 		126.1
(-0.5)
A 		90.2
(-3)
A 		174.9
(3)
P 		85
C 117.1
(-0)
M 		35.1
(-3)
A 		53.7
(-2.3)
A 		199.9
(3)
P 		165
avr 131.5
(0.3) 		98.7
(-1.4) 		66.6
(-3) 		184.4
(3) 		118

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 203
1 2 3 4 5 6 range
A 85.5
(0.1)
A 		117.6
(1.5)
A 		82.4
(-0.1)
M 		16
(-3)
A 		61.6
(-1)
A 		152.5
(3)
A 		137
B 126.9
(0.1)
P 		164.7
(2.1)
A 		180.3
(3)
P 		98.5
(-1.5)
A 		71.6
(-3)
A 		88.8
(-2.1)
A 		109
C 132.6
(-0.2)
P 		219.1
(3)
P 		101.2
(-1.3)
A 		109
(-1)
A 		54.7
(-3)
A 		142.5
(0.2)
A 		164
avr 115
(0) 		167.1
(3) 		121.3
(0.4) 		74.5
(-2.3) 		62.6
(-3) 		127.9
(0.7) 		105
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 39
1 2 3 4 range
A 49.1
(3)
M 		29.3
(-0.4)
A 		14.6
(-3)
A 		26.1
(-1)
P 		35
B 45.5
(3)
P 		31.1
(-0.5)
A 		20.9
(-3)
A 		37.3
(1)
P 		25
C 38.7
(3)
M 		10.1
(-3)
A 		18.7
(-1.2)
A 		33.7
(2)
P 		29
avr 44.4
(3) 		23.5
(-1.8) 		18.1
(-3) 		32.4
(0.3) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 63
1 2 3 4 5 6 range
A 15.8
(-1.1)
A 		41.8
(3)
A 		18
(-0.8)
M 		4.1
(-3)
A 		18.6
(-0.7)
A 		37.1
(2.3)
A 		38
B 44.2
(0.8)
P 		54.8
(3)
A 		43.8
(0.7)
P 		26.1
(-3)
A 		29.1
(-2.4)
A 		33.1
(-1.5)
A 		29
C 49.1
(0.8)
P 		66.8
(3)
P 		25.8
(-2)
A 		21.9
(-2.5)
A 		17.7
(-3)
A 		47.7
(0.7)
A 		49
avr 36.4
(0.1) 		54.5
(3) 		29.2
(-1.1) 		17.4
(-3) 		21.8
(-2.3) 		39.3
(0.5) 		37
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 181269_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6681
Sequence Type Exemplar sequence
Representative Public ID Y39A1B.3 NCBI
Target Description Y39A1B.3 /REP_DB=WormBase Gene ID /WP=CE24223 /TR=Q9U2M1 /GB=CAA16340.2 /SUBMIT=HINXTON /CHR=3 /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_066978(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066978 NCBI Caenorhabditis elegans DumPY : shorter than wild-type family member (dpy-28) (dpy-28) mRNA, complete cds. 11/11 None
GENEFINDER00000005070 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:10761343:10776804:1 11/11 None
SNAP00000005064 ENSEMBL cdna:SNAP chromosome:CEL140:III:10763024:10776804:1 11/11 None
Y39A1B.3 ENSEMBL cdna:known chromosome:CEL140:III:10763024:10777220:1 gene:Y39A1B.3 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
chrIII:10765910-10776800(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol dpy-28
Ensembl Y39A1B.3
Entrez Gene 176509 Entrez gene
SwissProt Q9U2M1 EMBL-EBI
WormBase CE31734 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:251680_AT non-SMC condensin subunit, XCAP-D2/Cnd1 family protein at
CANINE:1596030_AT similar to Condensin subunit 1 (Chromosome condensation-related SMC-associated protein 1) (Chromosome-associated protein D2) (hCAP-D2) (XCAP-D2 homolog) cfa
CANINE_2:CFA.6999.1.S1_AT similar to Condensin subunit 1 (Chromosome condensation-related SMC-associated protein 1) (Chromosome-associated protein D2) (hCAP-D2) (XCAP-D2 homolog) cfa
CANINE_2:CFAAFFX.23279.1.S1_S_AT similar to Condensin subunit 1 (Chromosome condensation-related SMC-associated protein 1) (Chromosome-associated protein D2) (hCAP-D2) (XCAP-D2 homolog) cfa
CANINE_2:CFAAFFX.23284.1.S1_S_AT similar to Condensin subunit 1 (Chromosome condensation-related SMC-associated protein 1) (Chromosome-associated protein D2) (hCAP-D2) (XCAP-D2 homolog) cfa
DROSOPHILA_2:1625447_AT CAP-D2 condensin subunit dm
DROSGENOME1:154905_AT CAP-D2 condensin subunit dm
CHICKEN:GGAAFFX.9168.3.S1_S_AT similar to Condensin subunit 1 (Chromosome condensation-related SMC-associated protein 1) (Chromosome-associated protein D2) (hCAP-D2) (XCAP-D2 homolog) gga
HG-U95AV2:35314_AT chromosome condensation-related SMC-associated protein 1 hs
HUGENEFL:D63880_AT chromosome condensation-related SMC-associated protein 1 hs
U133_X3P:HS.5719.0.S1_3P_A_AT chromosome condensation-related SMC-associated protein 1 hs
HG-U133A_2:201774_S_AT chromosome condensation-related SMC-associated protein 1 hs
HG-U133_PLUS_2:201774_S_AT chromosome condensation-related SMC-associated protein 1 hs
HG-U133A:201774_S_AT chromosome condensation-related SMC-associated protein 1 hs
HG-U95D:87523_AT Chromosome condensation-related SMC-associated protein 1 hs
MG-U74BV2:107617_AT RIKEN cDNA 2810406C15 gene mm
MOE430A:1423847_AT RIKEN cDNA 2810406C15 gene mm
MOUSE430A_2:1423847_AT RIKEN cDNA 2810406C15 gene mm
MOUSE430_2:1423847_AT RIKEN cDNA 2810406C15 gene mm
MU19KSUBB:TC34354_AT RIKEN cDNA 2810406C15 gene, mRNA (cDNA clone MGC:37090 IMAGE:4951596) mm
MU19KSUBC:TC35297_AT RIKEN cDNA 2810406C15 gene, mRNA (cDNA clone MGC:37090 IMAGE:4951596) mm
RG-U34B:RC_AA945487_AT similar to mKIAA0159 protein rn
RAE230A:1374799_AT similar to mKIAA0159 protein rn
RAT230_2:1374799_AT similar to mKIAA0159 protein rn
YEAST_2:1779459_AT Non-SMC subunit of the condensin complex (Smc2p-Smc4p-Ycs4p-Brn1p-Ycg1p); required for establishment and maintenance of chromosome condensation, chromosome segregation, chromatin binding of condensin and silencing at the mating type locus Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7067 mitosis inferred from electronic annotation QuickGO AmiGO
30261 chromosome condensation inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA16340 Hypothetical protein Y39A1B.3 [Caenorhabditis elegans] ref|NP_499379.2| DumPY : shorter than wild-type family member (dpy-28) [Caenorhabditis elegans] 0.0
blast AAK81894 mutant dosage compensation protein; DPY-28 [Caenorhabditis elegans] 0.0
blast CAB07249 Hypothetical protein K01G5.9 [Caenorhabditis elegans] emb|CAA16341.2| Hypothetical protein K01G5.9 [Caenorhabditis elegans] ref|NP_499377.2| K01G5.9 [Caenorhabditis elegans] 2.0E-90
blast CAH65059 hypothetical protein [Gallus gallus] 3.0E-30
Protein Domains
Database ID Description E-Value
Pfam IPR007673 EMBL-EBI Non-SMC condensin subunit, XCAP-D2/Cnd1 1.9E-36
Pfam IPR007673 EMBL-EBI Non-SMC condensin subunit, XCAP-D2/Cnd1 1.0E-126
Pfam IPR007673 EMBL-EBI Non-SMC condensin subunit, XCAP-D2/Cnd1 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:181269_AT
gcgagcgctgattcgatgattgatcgagtttgtatcaaattctcgaatactgacatgaac
gactcggaaacaccgaaatatttgcttgtggctctcgccaaatttgtgcaaaatgatgga
ggccttcataggcttcaagacaactggcgtcactggagcaagtttatgtgtcatccgagt
gttgcaaaagagtatcgaatgatggttgaacatatgcattcaacgtcgaaaaatgatgaa
ttcaaaagtcaatgtgttgaattgattgataatatcaataaaattgaatcagaaggattg
agaaaagaggatgttgctattggatcttcaatcaccaagaacaaaggccgcgcgaagaag
aatcccaccaccatgtcaggatcatcccgaacaacatcccgagcagccaactcaagacgc
agagctcctccaccagcacaatccgatgaagatgattcggattccgacgatgctccggcg
gcacctcgatctgctgcacgacgaaaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCGAGCGCTGATTCGATGATTGATC 557 289 3226 Antisense
GAAATATTTGCTTGTGGCTCTCGCC 369 363 3300 Antisense
GGCCTTCATAGGCTTCAAGACAACT 460 539 3346 Antisense
GACAACTGGCGTCACTGGAGCAAGT 645 365 3364 Antisense
TTATGTGTCATCCGAGTGTTGCAAA 41 681 3389 Antisense
GTTGCTATTGGATCTTCAATCACCA 118 439 3538 Antisense
AAAGGCCGCGCGAAGAAGAATCCCA 205 119 3568 Antisense
CCACCATGTCAGGATCATCCCGAAC 551 273 3593 Antisense
CGAGCAGCCAACTCAAGACGCAGAG 367 251 3625 Antisense
CTCCACCAGCACAATCCGATGAAGA 34 237 3653 Antisense
CCTCGATCTGCTGCACGACGAAAAG 406 267 3709 Antisense
Sequence Source Affymetrix Proprietary Database