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[193488_at] Drosophila puff specific protein BX42 like

Description T27F2.1 /REP_DB=WormBase Gene ID /WP=CE06519 /TR=SW:Q22836 /GB=CAA98552.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Drosophila puff specific protein BX42 like
Cluster 6grp_highest_10_10 > 93      6grp_high1_10_10 > 48      4grp_highest_8_8 > 46      4grp_high_8_8 > 10      6grp_highest_nonorm > 86      6grp_total > 48      4grp_total > 14      6grp_highest_sub > Cu      6grp_cgc > 17      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 329
1 2 3 4 range
A 813.4
(1.7)
P 		625.1
(-1.9)
P 		569.8
(-3)
P 		877.7
(3)
P 		308
B 821.7
(1.5)
P 		584.4
(-3)
P 		663.6
(-1.5)
P 		899
(3)
P 		315
C 857.9
(3)
P 		701.1
(-1.6)
P 		651.8
(-3)
P 		802.8
(1.4)
P 		206
avr 831
(2.3) 		636.9
(-2.8) 		628.4
(-3) 		859.8
(3) 		231

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 348
1 2 3 4 5 6 range
A 1041.6
(3)
P 		808.5
(-1.9)
P 		832
(-1.4)
P 		758.8
(-3)
P 		882.3
(-0.4)
P 		991.4
(1.9)
P 		283
B 1107
(3)
P 		862.6
(-1.9)
P 		810.6
(-3)
P 		911.4
(-1)
P 		902.5
(-1.1)
P 		1052.1
(1.9)
P 		296
C 920.7
(-0.5)
P 		1016.4
(1.7)
P 		841.4
(-2.4)
P 		1071.5
(3)
P 		816.3
(-3)
P 		1068.4
(2.9)
P 		255
avr 1023.1
(2.6) 		895.8
(-1.1) 		828
(-3) 		913.9
(-0.5) 		867
(-1.9) 		1037.3
(3) 		209
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 168
1 2 3 4 range
A 296.2
(3)
P 		135.7
(-2.7)
P 		149
(-2.3)
P 		128.5
(-3)
P 		168
B 262
(3)
P 		144.3
(-3)
P 		153.8
(-2.5)
P 		191.6
(-0.6)
P 		118
C 284
(3)
P 		201.6
(-0.3)
P 		227.2
(0.7)
P 		135.4
(-3)
P 		149
avr 280.7
(3) 		160.5
(-2.6) 		176.7
(-1.8) 		151.8
(-3) 		129

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 211
1 2 3 4 5 6 range
A 192
(-2.4)
P 		287.6
(3)
P 		181.2
(-3)
P 		192.5
(-2.4)
P 		266.2
(1.8)
P 		241.4
(0.4)
P 		106
B 385.2
(2.8)
P 		287.1
(-0.2)
P 		196.8
(-3)
P 		241.4
(-1.6)
P 		366.7
(2.2)
P 		392.3
(3)
P 		196
C 341.3
(2.3)
P 		310.1
(1)
P 		214.2
(-3)
P 		215.5
(-2.9)
P 		264.2
(-0.9)
P 		357.7
(3)
P 		144
avr 306.2
(1.9) 		294.9
(1.4) 		197.4
(-3) 		216.5
(-2.1) 		299
(1.6) 		330.5
(3) 		133
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193488_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12651
Sequence Type Exemplar sequence
Representative Public ID T27F2.1 NCBI
Target Description T27F2.1 /REP_DB=WormBase Gene ID /WP=CE06519 /TR=SW:Q22836 /GB=CAA98552.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Drosophila puff specific protein BX42 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_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 
SNAP00000017029 ENSEMBL cdna:SNAP chromosome:CEL140:V:11648087:11651273:1 10/11 None
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
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:11648086-11652563(+) 99.81 100.0
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:193488_AT
ggcagaagccgcagcaaaagcccgccaggaaagatcagcgatgcggagaaaggacgatga
agatgatgaacaagtcaaagttcgcgaagaaattcgacgtgatcgtctcgacgatatcag
gaaagaaagaaatattgctcgttcacgaccagataaagctgacaagcttcgcaaagagcg
tgaaagagatatttcggagaaaattgtgcttggtttgccggacacgaatcagaaacgaac
tggcgaaccacagttcgatcaaagattgtttgataaaacccagggactcgacagtggagc
aatggacgatgatacttacaatccttatgatgctgcgtggcgtggcggtgacagtgttca
acagcacgtttatcgaccgagcaaaaatctcgacaacgatgtttatggtggcgatttgga
caagatcatcgaacagaagaatcggtttgtagctgataaaggattttcaggagcagaggg
ctcgagtcgtggatctggacctgttcagttcgagaaggatcaagatgttttcggattgtc
atcacttttcgagcacacc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGCAGAAGCCGCAGCAAAAGCCCGC 17 535 993 Antisense
CAAAAGCCCGCCAGGAAAGATCAGC 74 189 1007 Antisense
AATTCGACGTGATCGTCTCGACGAT 173 175 1083 Antisense
AATATTGCTCGTTCACGACCAGATA 223 175 1123 Antisense
AGCTGACAAGCTTCGCAAAGAGCGT 477 81 1149 Antisense
GAAAATTGTGCTTGGTTTGCCGGAC 373 353 1191 Antisense
GCTTGGTTTGCCGGACACGAATCAG 207 307 1200 Antisense
AAACCCAGGGACTCGACAGTGGAGC 52 1 1268 Antisense
GGACGATGATACTTACAATCCTTAT 649 523 1296 Antisense
TCCTTATGATGCTGCGTGGCGTGGC 622 591 1314 Antisense
ATTGTCATCACTTTTCGAGCACACC 325 5 1527 Antisense
Sequence Source Affymetrix Proprietary Database