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[173328_s_at] Drosophila puff specific protein BX42 like

Description AV178205_rc /REP_DB=TREMBL Accession /GB=AV178205 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk561g3 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 85      6grp_high1_10_10 > 58      4grp_highest_8_8 > 39      4grp_high_8_8 > 12      6grp_highest_nonorm > 82      6grp_total > 47      4grp_total > 12      6grp_highest_sub > Cu      6grp_cgc > 27      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 484
1 2 3 4 range
A 299.8
(-0.7)
P 		248.6
(-1.7)
P 		180.6
(-3)
P 		497.1
(3)
P 		317
B 395.5
(0)
P 		266
(-3)
P 		282.6
(-2.6)
P 		521.6
(3)
P 		256
C 384.2
(-0.6)
P 		362.8
(-0.9)
P 		199.6
(-3)
P 		664.7
(3)
P 		465
avr 359.8
(-0.6) 		292.5
(-1.7) 		220.9
(-3) 		561.1
(3) 		340

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 323
1 2 3 4 5 6 range
A 394.4
(2.5)
P 		345
(-0.7)
P 		402.7
(3)
P 		309.3
(-3)
P 		351.3
(-0.3)
P 		330.1
(-1.7)
P 		93
B 449.1
(1.4)
P 		366.6
(-0.2)
P 		372.1
(-0.1)
P 		227.2
(-3)
P 		392.4
(0.3)
P 		527.8
(3)
P 		301
C 349.3
(-0.8)
P 		519
(2.4)
P 		234.8
(-3)
P 		453.1
(1.2)
P 		260.2
(-2.5)
P 		549.8
(3)
P 		315
avr 397.6
(-0.1) 		410.2
(0.5) 		336.5
(-2.7) 		329.9
(-3) 		334.6
(-2.8) 		469.2
(3) 		139
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 80
1 2 3 4 range
A 109.2
(3)
P 		54
(-2.3)
P 		47.2
(-3)
P 		72.8
(-0.5)
P 		62
B 126.1
(3)
P 		65.7
(-3)
P 		65.5
(-3)
P 		111.1
(1.5)
P 		61
C 127.2
(3)
P 		104.3
(0.6)
P 		69.6
(-3)
P 		112.1
(1.4)
P 		58
avr 120.8
(3) 		74.7
(-1.6) 		60.8
(-3) 		98.7
(0.8) 		60

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 137
1 2 3 4 5 6 range
A 72.7
(-3)
P 		122.7
(3)
P 		87.7
(-1.2)
P 		78.5
(-2.3)
P 		106
(1)
P 		80.4
(-2.1)
P 		50
B 156.3
(1.2)
P 		122
(-0.3)
P 		90.4
(-1.7)
P 		60.2
(-3)
P 		159.4
(1.4)
P 		196.8
(3)
P 		137
C 129.5
(0.4)
P 		158.4
(1.8)
P 		59.8
(-3)
P 		91.1
(-1.5)
P 		84.2
(-1.8)
P 		184.1
(3)
P 		124
avr 119.5
(0.3) 		134.4
(1.5) 		79.3
(-2.8) 		76.6
(-3) 		116.5
(0.1) 		153.8
(3) 		77
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173328_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27920
Sequence Type Exemplar sequence
Representative Public ID AV178205 NCBI
Target Description AV178205_rc /REP_DB=TREMBL Accession /GB=AV178205 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk561g3 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript 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_073549(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073549 NCBI Caenorhabditis elegans mammalian SKIP (Ski interacting protein) homolog family member (skp-1) (skp-1) mRNA, complete cds. 11/11 A 
GENEFINDER00000017034 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:11648087:11652579:1 11/11 None
T27F2.1.2 ENSEMBL cdna:known chromosome:CEL140:V:11648068:11652671:1 gene:T27F2.1 11/11 A 
T27F2.1.3 ENSEMBL cdna:known chromosome:CEL140:V:11648070:11652920:1 gene:T27F2.1 11/11 None
T27F2.1.1 ENSEMBL cdna:known chromosome:CEL140:V:11648070:11652671:1 gene:T27F2.1 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000017029 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:11649544-11652578(+) 86.67 92.12
Public Domain and Genome References
Gene Title Drosophila puff specific protein BX42 like
Gene Symbol skp-1
Ensembl T27F2.1
Entrez Gene 179598 Entrez gene
SwissProt Q22836 EMBL-EBI
WormBase CE06519 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1602398_X_AT similar to Nuclear protein SkiP (Ski-interacting protein) (SNW1 protein) (Nuclear receptor coactivator NCoA-62) cfa
CANINE_2:CFA.20242.1.S1_S_AT similar to Nuclear protein SkiP (Ski-interacting protein) (SNW1 protein) (Nuclear receptor coactivator NCoA-62) cfa
CANINE_2:CFA.2161.1.A1_AT similar to Nuclear protein SkiP (Ski-interacting protein) (SNW1 protein) (Nuclear receptor coactivator NCoA-62) cfa
CANINE_2:CFAAFFX.26368.1.S1_S_AT similar to Nuclear protein SkiP (Ski-interacting protein) (SNW1 protein) (Nuclear receptor coactivator NCoA-62) cfa
CANINE_2:CFAAFFX.26374.1.S1_AT similar to Nuclear protein SkiP (Ski-interacting protein) (SNW1 protein) (Nuclear receptor coactivator NCoA-62) cfa
DROSOPHILA_2:1637100_AT Bx42 dm
DROSGENOME1:142686_AT Bx42 dm
CHICKEN:GGA.3344.1.S1_AT SNW domain containing 1 gga
HG-U133_PLUS_2:201575_AT SNW domain containing 1 hs
HG-U133A:201575_AT SNW domain containing 1 hs
HG-FOCUS:201575_AT SNW domain containing 1 hs
HG-U133A_2:201575_AT SNW domain containing 1 hs
HUGENEFL:U51432_AT SNW domain containing 1 hs
U133_X3P:G6912675_3P_AT SNW domain containing 1 hs
U133_X3P:HS.79008.1.S1_3P_A_AT SNW domain containing 1 hs
HG-U133A_2:215424_S_AT SNW domain containing 1 hs
HG-U133_PLUS_2:215424_S_AT SNW domain containing 1 hs
HG-U133A:215424_S_AT SNW domain containing 1 hs
HG-U95AV2:37715_AT SNW domain containing 1 hs
MG-U74AV2:104158_AT SNW domain containing 1 mm
MG-U74BV2:117271_AT SNW domain containing 1 mm
MOUSE430_2:1429002_AT SNW domain containing 1 (Snw1), mRNA mm
MOE430A:1429002_AT SNW domain containing 1 (Snw1), mRNA mm
MOUSE430A_2:1429002_AT SNW domain containing 1 (Snw1), mRNA mm
MU11KSUBA:AA059626_S_AT SNW domain containing 1 (Snw1), mRNA mm
MOE430A:1429003_AT SNW domain containing 1 (Snw1), mRNA mm
MOUSE430A_2:1429003_AT SNW domain containing 1 (Snw1), mRNA mm
MOUSE430_2:1429003_AT SNW domain containing 1 (Snw1), mRNA mm
MOE430B:1459026_AT SNW domain containing 1 (Snw1), mRNA mm
MOUSE430_2:1459026_AT SNW domain containing 1 (Snw1), mRNA mm
MU19KSUBA:TC20925_AT SNW domain containing 1 (Snw1), mRNA mm
MU19KSUBC:TC39653_AT SNW domain containing 1 (Snw1), mRNA mm
RG-U34B:RC_AA944168_AT Similar to Nuclear protein SkiP (Ski-interacting protein) (SNW1 protein) (Nuclear receptor coactivator NCoA-62) rn
Gene Ontology
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 CAA98552 Hypothetical protein T27F2.1 [Caenorhabditis elegans] ref|NP_505950.1| mammalian SKIP (Ski interacting protein) homolog family member (skp-1) [Caenorhabditis elegans] sp|Q22836|YGH1_CAEEL Hypothetical protein T27F2.1 in chromosome V 0.0
blast CAE75321 Hypothetical protein CBG23295 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004015 EMBL-EBI SKIP/SNW domain 2.7E-119
Sequence
Target Sequence 
>C. ELEGANS:173328_S_AT
gcgtggcggtgacagtgttcaacagcacgtttatcgaccgagcaaaantctcgacaacga
tgtttatggtggcgatttggacaagatcatcgaacagaagaatcggtttgtagctgataa
aggattttcaggagcagagggctcgagtcgtggatctggacctgttcagttcgagaagga
tcaagatgttttcggattgtcatcacttttnnnnnnnnnnnnnnnnnnnnnnnnnnntgg
ggatggtggagactcccgtggagaatcaaagaggt

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCGTGGCGGTGACAGTGTTCAACAG 215 293 13 Antisense
AACAGCACGTTTATCGACCGAGCAA 529 123 33 Antisense
GACAACGATGTTTATGGTGGCGATT 387 365 65 Antisense
TGGTGGCGATTTGGACAAGATCATC 580 553 79 Antisense
AAAGGATTTTCAGGAGCAGAGGGCT 62 121 131 Antisense
GAGCAGAGGGCTCGAGTCGTGGATC 225 387 144 Antisense
GTCGTGGATCTGGACCTGTTCAGTT 257 473 159 Antisense
GGACCTGTTCAGTTCGAGAAGGATC 617 523 170 Antisense
ATGTTTTCGGATTGTCATCACTTTT 508 47 198 Antisense
TGGGGATGGTGGAGACTCCCGTGGA 612 541 250 Antisense
GACTCCCGTGGAGAATCAAAGAGGT 659 371 263 Antisense
Sequence Source Affymetrix Proprietary Database