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[175630_at] WD domain, G-beta repeats (4 domains)

Description g9081898 /REP_DB=GenBank Identifier /GB=AF164430.1 /PROTEIN_GB=AAF82632.1 /CHR=3 /FEA=Mapped Transcript /DEF=LIS-1
Cluster 6grp_highest_10_10 > 81      6grp_high1_10_10 > 39      4grp_highest_8_8 > 14      4grp_high_8_8 > 22      6grp_highest_nonorm > 60      6grp_total > 28      4grp_total > 16      6grp_highest_sub > Cu      6grp_cgc > 02      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 306
1 2 3 4 range
A 474.4
(-1.2)
P 		380.3
(-3)
P 		538.4
(0.1)
P 		686.6
(3)
P 		306
B 504.8
(-3)
P 		615.2
(3)
P 		531.7
(-1.5)
P 		516.2
(-2.4)
P 		110
C 498.6
(-3)
P 		568.1
(0.2)
P 		551.4
(-0.6)
P 		628
(3)
P 		129
avr 492.6
(-3) 		521.2
(-1.5) 		540.5
(-0.6) 		610.3
(3) 		118

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 432
1 2 3 4 5 6 range
A 616.6
(3)
P 		395.3
(-2)
P 		360.1
(-2.9)
P 		353.6
(-3)
P 		479.2
(-0.1)
P 		458.3
(-0.6)
P 		263
B 517.6
(3)
P 		367
(0.3)
P 		184.4
(-3)
P 		354.1
(0.1)
P 		354
(0.1)
P 		412.1
(1.1)
P 		333
C 591.7
(3)
P 		414.8
(0.1)
P 		356.7
(-0.8)
P 		221.8
(-3)
P 		468.9
(1)
P 		341.4
(-1.1)
P 		370
avr 575.3
(3) 		392.4
(-1) 		300.4
(-3) 		309.8
(-2.8) 		434
(-0.1) 		403.9
(-0.7) 		275
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 110
1 2 3 4 range
A 172.7
(3)
P 		82.6
(-3)
P 		140.7
(0.9)
P 		100.5
(-1.8)
P 		90
B 161
(3)
P 		151.9
(1.9)
P 		123.2
(-1.4)
P 		110
(-3)
P 		51
C 165.1
(1.1)
P 		163.3
(1)
P 		192.2
(3)
P 		105.9
(-3)
P 		86
avr 166.3
(3) 		132.6
(-0.3) 		152
(1.6) 		105.5
(-3) 		61

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 175
1 2 3 4 5 6 range
A 113.7
(0.2)
P 		140.6
(2.6)
P 		78.4
(-3)
P 		89.7
(-2)
P 		144.6
(3)
P 		111.6
(0)
P 		66
B 180.1
(3)
P 		122.2
(0.4)
P 		44.8
(-3)
P 		93.8
(-0.8)
P 		143.8
(1.4)
P 		153.7
(1.8)
P 		135
C 219.3
(3)
P 		126.6
(-0.2)
P 		90.8
(-1.4)
P 		44.6
(-3)
P 		151.7
(0.7)
P 		114.3
(-0.6)
P 		175
avr 171
(3) 		129.8
(0.5) 		71.3
(-3) 		76
(-2.7) 		146.7
(1.5) 		126.5
(0.3) 		100
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175630_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19800
Sequence Type Exemplar sequence
Representative Public ID 9081898 NCBI
Target Description g9081898 /REP_DB=GenBank Identifier /GB=AF164430.1 /PROTEIN_GB=AAF82632.1 /CHR=3 /FEA=Mapped Transcript /DEF=LIS-1
Cluster Evidence This cluster is supported by a Mapped Transcript.
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_067354(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067354 NCBI Caenorhabditis elegans LIS-1 (human lissencephaly gene) related family member (lis-1) (lis-1) mRNA, complete cds. 11/11 A 
T03F6.5 ENSEMBL cdna:known chromosome:CEL140:III:13370691:13376226:-1 gene:T03F6.5 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000014313 1/11 Cross Hyb Matching Probes None
GENEFINDER00000014324 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:13370686-13376213(-) 100.0 100.0
Public Domain and Genome References
Gene Title WD domain, G-beta repeats (4 domains)
Gene Symbol lis-1
Ensembl T03F6.5
Entrez Gene 176758 Entrez gene
SwissProt Q9NDC9 EMBL-EBI
WormBase CE29339 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1585316_AT similar to platelet-activating factor acetylhydrolase beta subunit cfa
CANINE_2:CFA.20213.1.S1_S_AT similar to platelet-activating factor acetylhydrolase beta subunit cfa
CANINE_2:CFA.7218.1.A1_S_AT similar to platelet-activating factor acetylhydrolase beta subunit cfa
DROSOPHILA_2:1624854_S_AT Lissencephaly-1 dm
DROSGENOME1:143837_AT Lissencephaly-1 dm
CHICKEN:GGA.11892.1.S1_S_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa gga
CHICKEN:GGA.3126.1.S1_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa gga
HG-U95AV2:37317_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HG-U133_PLUS_2:200816_S_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HG-U133A:200816_S_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HG-FOCUS:200816_S_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HG-U133A_2:200816_S_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HG-U133_PLUS_2:211547_S_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HG-U133A:211547_S_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HG-U133A_2:211547_S_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HG-U133_PLUS_2:200813_S_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HG-U133A_2:200813_S_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HG-U133A:200813_S_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HG-U133_PLUS_2:200815_S_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HG-U133A:200815_S_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HG-U133A_2:200815_S_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HU35KSUBD:RC_R55824_S_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HU35KSUBD:RC_AA453432_S_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HUGENEFL:U72342_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
U133_X3P:G6031206_3P_A_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
U133_X3P:G349827_3P_A_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
U133_X3P:G349825_3P_A_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
U133_X3P:HS.77318.0.A2_3P_A_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HG-U95AV2:32569_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HG-U133_PLUS_2:244328_X_AT Platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HG-U133B:244328_X_AT Platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HG-U95E:68703_R_AT Platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HG-U95E:89427_AT Platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HU35KSUBD:RC_D12032_AT Platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
HU35KSUBC:RC_N55361_AT Platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
U133_X3P:HS.271374.0.A1_3P_AT Platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa hs
MOE430A:1427703_AT platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit mm
MOUSE430_2:1427703_AT platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit mm
MOUSE430A_2:1427703_AT platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit mm
MOE430A:1417086_AT platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit mm
MOUSE430A_2:1417086_AT platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit mm
MOUSE430_2:1417086_AT platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit mm
MOUSE430A_2:1460199_A_AT platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit mm
MOUSE430_2:1460199_A_AT platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit mm
MOE430A:1460199_A_AT platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit mm
MU11KSUBB:MSA.908.0_S_AT platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit mm
MU11KSUBB:U95116_AT platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit mm
MU11KSUBB:U95116_G_AT platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit mm
MG-U74AV2:100560_AT platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit mm
MOE430A:1448578_AT platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit mm
MOUSE430A_2:1448578_AT platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit mm
MOUSE430_2:1448578_AT platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit mm
MOE430B:1439656_AT Platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit, mRNA (cDNA clone MGC:13913 IMAGE:4017963) mm
MOUSE430_2:1439656_AT Platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit, mRNA (cDNA clone MGC:13913 IMAGE:4017963) mm
MOE430B:1441404_AT Platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit, mRNA (cDNA clone MGC:13913 IMAGE:4017963) mm
MOUSE430_2:1441404_AT Platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit, mRNA (cDNA clone MGC:13913 IMAGE:4017963) mm
MOUSE430_2:1444125_AT Platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit, mRNA (cDNA clone MGC:13913 IMAGE:4017963) mm
MOE430B:1444125_AT Platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit, mRNA (cDNA clone MGC:13913 IMAGE:4017963) mm
MOUSE430_2:1456947_AT Platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit, mRNA (cDNA clone MGC:13913 IMAGE:4017963) mm
MOE430B:1456947_AT Platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit, mRNA (cDNA clone MGC:13913 IMAGE:4017963) mm
MU19KSUBA:TC15078_S_AT Platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit, mRNA (cDNA clone MGC:13913 IMAGE:4017963) mm
MU19KSUBB:TC34860_S_AT Platelet-activating factor acetylhydrolase, isoform 1b, beta1 subunit, mRNA (cDNA clone MGC:13913 IMAGE:4017963) mm
RG-U34A:AA801441_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa rn
RG-U34A:RC_H31367_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa rn
RG-U34A:RC_AI234730_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa rn
RG-U34B:RC_AI044887_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa rn
RAE230A:1392890_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa rn
RAT230_2:1392890_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa rn
RAE230A:1387807_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa rn
RAT230_2:1387807_AT platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa rn
RAE230A:1398389_AT Platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa rn
RAT230_2:1398389_AT Platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa rn
RG-U34B:RC_AI010332_AT Platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa rn
RG-U34B:RC_AI045338_AT Platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa rn
Protein Similarities
Method ID Description E-Value
blast CAB03282 Hypothetical protein T03F6.5 [Caenorhabditis elegans] ref|NP_499755.1| LIS-1 (human lissencephaly gene) related family member (lis-1) [Caenorhabditis elegans] gb|AAF82632.1| LIS-1 [Caenorhabditis elegans] sp|Q9NDC9|LIS1_CAEEL Lissencephaly-1 homolog (Pronuclear migration abnormal protein 1) 0.0
blast CAE73712 Hypothetical protein CBG21225 [Caenorhabditis briggsae] 0.0
blast AAS64845 CG8440-PF, isoform F [Drosophila melanogaster] gb|AAO41383.1| CG8440-PE, isoform E [Drosophila melanogaster] gb|AAO41382.1| CG8440-PD, isoform D [Drosophila melanogaster] gb|AAO41381.1| CG8440-PC, isoform C [Drosophila melanogaster] gb|AAO41380.1| CG8440-PB, isoform B [Drosophila melanogaster] gb|AAF58050.1| CG8440-PA, isoform A [Drosophila melanogaster] ref|NP_995852.1| CG8440-PF, isoform F [Drosophila melanogaster] ref|NP_788373.1| CG8440-PE, isoform E [Drosophila melanogaster] ref|NP_788372.1| CG8440-PD, isoform D [Drosophila melanogaster] ref|NP_788371.1| CG8440-PC, isoform C [Drosophila melanogaster] ref|NP_788370.1| CG8440-PB, isoform B [Drosophila melanogaster] ref|NP_477160.1| CG8440-PA, isoform A [Drosophila melanogaster] gb|AAD13113.1| lissencephaly-1 [Drosophila melanogaster] gb|AAX33552.1| LD11219p [Drosophila melanogaster] gb|AAD38390.1| WD-40 protein LIS1 [Drosophila melanogaster] sp|Q7KNS3|LIS1_DROME Lissencephaly-1 homolog (Lissencephaly1) (Dlis1) (DLis-1) 1.0E-145
Protein Domains
Database ID Description E-Value
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.6E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 2.5E-11
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.4E-13
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 6.3E-11
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 6.8E-12
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 4.6E-12
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.1E-10
Sequence
Target Sequence 
>C. ELEGANS:175630_AT
tcaacagttgcattccatcaaacatctccgttcgtcatcacaggaagtgtggatatgtcg
tgcaaagtttgggaatgccgttgaccgaaatattctccataattcttcgaattatctaat
tttccctattgctttcattgcactttctccacttttcatcaaaaatttcaacttttgatt
tataattttcgggtggttatggtcgaaattgatcagaaatcagaaatccaccgaatttta
aaaatcaatttcgatgaatttgctcctcgcgccggtagaaacgtttaattctttgttttc
cctcttctatttgtgtatcgccctggtggttgtgaatcttccctttcattatgttaagtt
aaaaatattttttctctttttttctcccccacccccctcttaaattatccgccctattat
cttttttgtttctttccttgagcaatttttcgcttttttgtcttgttctatcagctctct
tctcagtgctgagcagcatttccccc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAACAGTTGCATTCCATCAAACAT 124 631 1206 Antisense
ATTTCGATGAATTTGCTCCTCGCGC 693 15 1453 Antisense
GTGTATCGCCCTGGTGGTTGTGAAT 686 483 1518 Antisense
TGGTTGTGAATCTTCCCTTTCATTA 142 551 1532 Antisense
TAAATTATCCGCCCTATTATCTTTT 402 641 1606 Antisense
TATCTTTTTTGTTTCTTTCCTTGAG 584 659 1623 Antisense
CTTTCCTTGAGCAATTTTTCGCTTT 398 223 1637 Antisense
TTTTCGCTTTTTTGTCTTGTTCTAT 473 677 1652 Antisense
TTTTTGTCTTGTTCTATCAGCTCTC 397 675 1660 Antisense
ATCAGCTCTCTTCTCAGTGCTGAGC 220 29 1675 Antisense
CTCAGTGCTGAGCAGCATTTCCCCC 426 227 1687 Antisense
Sequence Source GenBank