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[184942_at]

Description F20D12.3 /REP_DB=WormBase Gene ID /WP=CE04433 /TR=Q19640 /GB=AAA81672.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 35      4grp_total > 22      6grp_cgc > 44      6grp_cgc_sub > 02      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 109
1 2 3 4 range
A 79.3
(1.2)
A 		2.3
(-3)
A 		14.1
(-2.4)
A 		111.4
(3)
A 		109
B 34.1
(0.5)
A 		53
(3)
A 		7.3
(-3)
A 		28.3
(-0.2)
A 		46
C 65.8
(2.8)
A 		12.8
(-2.1)
A 		2.4
(-3)
A 		68.5
(3)
A 		66
avr 59.7
(2.1) 		22.7
(-1.6) 		7.9
(-3) 		69.4
(3) 		62

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 75
1 2 3 4 5 6 range
A 6.5
(-2.9)
A 		20.6
(-1)
A 		50.9
(3)
A 		5.7
(-3)
A 		25.9
(-0.3)
A 		25.1
(-0.4)
A 		45
B 68
(3)
A 		63.7
(2.5)
A 		49.5
(1)
A 		19.3
(-2.3)
A 		12.8
(-3)
A 		21.4
(-2.1)
A 		55
C 41.2
(0.2)
A 		76.3
(3)
A 		1.4
(-3)
A 		23.6
(-1.2)
A 		15.1
(-1.9)
A 		40.5
(0.1)
A 		75
avr 38.6
(0.6) 		53.5
(3) 		33.9
(-0.2) 		16.2
(-3) 		17.9
(-2.7) 		29
(-0.9) 		37
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 28
1 2 3 4 range
A 28.9
(3)
A 		0.5
(-3)
A 		3.7
(-2.3)
A 		16.3
(0.3)
A 		28
B 10.9
(1.8)
A 		13.1
(3)
A 		1.7
(-3)
A 		6
(-0.7)
A 		11
C 21.8
(3)
A 		3.7
(-2.2)
A 		0.8
(-3)
A 		11.6
(0.1)
A 		21
avr 20.5
(3) 		5.8
(-1.8) 		2.1
(-3) 		11.3
(0) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 23
1 2 3 4 5 6 range
A 1.2
(-3)
A 		7.3
(0.7)
A 		11.1
(3)
A 		1.4
(-2.9)
A 		7.8
(1)
A 		6.1
(-0)
A 		10
B 23.7
(3)
A 		21.2
(2.2)
A 		12
(-0.8)
A 		5.1
(-3)
A 		5.2
(-3)
A 		8
(-2.1)
A 		19
C 15.3
(0.9)
A 		23.3
(3)
A 		0.4
(-3)
A 		4.8
(-1.8)
A 		4.9
(-1.8)
A 		13.5
(0.4)
A 		23
avr 13.4
(1.3) 		17.3
(3) 		7.8
(-1.2) 		3.8
(-3) 		6
(-2) 		9.2
(-0.6) 		14
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184942_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9274
Sequence Type Exemplar sequence
Representative Public ID F20D12.3 NCBI
Target Description F20D12.3 /REP_DB=WormBase Gene ID /WP=CE04433 /TR=Q19640 /GB=AAA81672.1 /SUBMIT=ST.LOUIS /CHR=4 /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_068924(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068924 NCBI Caenorhabditis elegans BBS (Bardet-Biedl Syndrome) protein family member (bbs-2) (bbs-2) mRNA, complete cds. 11/11 None
SNAP00000004275 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7934111:7937642:1 11/11 None
GENEFINDER00000004286 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7934111:7937642:1 10/11 None
F20D12.3 ENSEMBL cdna:known chromosome:CEL140:IV:7934111:7937642:1 gene:F20D12.3 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
chrIV:7934116-7937648(+) 99.05 100.0
Public Domain and Genome References
Gene Title
Gene Symbol bbs-2
Ensembl F20D12.3
Entrez Gene 259580 Entrez gene
SwissProt Q19640 EMBL-EBI
WormBase CE04433 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1585649_AT similar to Bardet-Biedl syndrome 2 protein cfa
CANINE_2:CFA.10586.1.A1_AT similar to Bardet-Biedl syndrome 2 protein cfa
CANINE_2:CFA.19779.1.S1_S_AT similar to Bardet-Biedl syndrome 2 protein cfa
CANINE_2:CFAAFFX.14414.1.S1_S_AT similar to Bardet-Biedl syndrome 2 protein cfa
CHICKEN:GGA.16275.2.S1_S_AT Bardet-Biedl syndrome 2 gga
CHICKEN:GGAAFFX.21504.1.S1_S_AT Bardet-Biedl syndrome 2 gga
HU35KSUBA:RC_AA476255_AT Bardet-Biedl syndrome 2 hs
HU35KSUBA:N78483_AT Bardet-Biedl syndrome 2 hs
HG-U133B:223227_AT Bardet-Biedl syndrome 2 hs
HG-U133_PLUS_2:223227_AT Bardet-Biedl syndrome 2 hs
U133_X3P:G13507378_3P_AT Bardet-Biedl syndrome 2 hs
HG-U95B:50398_AT Bardet-Biedl syndrome 2 hs
HG-U95E:70203_AT Bardet-Biedl syndrome 2 hs
HG-U95E:72933_R_AT Bardet-Biedl syndrome 2 hs
HG-U95C:57602_AT Bardet-Biedl syndrome 2 hs
HU35KSUBC:RC_N93457_AT Bardet-Biedl syndrome 2 hs
MOUSE430A_2:1424478_AT Bardet-Biedl syndrome 2 homolog (human) mm
MOE430A:1424478_AT Bardet-Biedl syndrome 2 homolog (human) mm
MOUSE430_2:1424478_AT Bardet-Biedl syndrome 2 homolog (human) mm
MG-U74BV2:111964_AT Bardet-Biedl syndrome 2 homolog (human) mm
MG-U74BV2:164682_AT Bardet-Biedl syndrome 2 homolog (human) mm
MG-U74BV2:113871_AT Bardet-Biedl syndrome 2 homolog (human) (Bbs2), mRNA mm
MU19KSUBC:TC38097_AT Bardet-Biedl syndrome 2 homolog (human) (Bbs2), mRNA mm
RG-U34B:RC_AA945879_AT Bardet-Biedl syndrome 2 (human) rn
RAE230A:1368509_AT Bardet-Biedl syndrome 2 (human) rn
RAT230_2:1368509_AT Bardet-Biedl syndrome 2 (human) rn
Protein Similarities
Method ID Description E-Value
blast AAA81672 Bbs (bardet-biedl syndrome) protein protein 2 [Caenorhabditis elegans] ref|NP_501325.1| BBS (Bardet-Biedl Syndrome) protein family member (bbs-2) [Caenorhabditis elegans] 0.0
blast CAE70915 Hypothetical protein CBG17712 [Caenorhabditis briggsae] 0.0
blast BAB55252.1 unnamed protein product [Homo sapiens] 1.0E-95
blast BAB55252.1 unnamed protein product [Homo sapiens] 4.0E-89
Protein Domains
Database ID Description E-Value
Pfam IPR000413 EMBL-EBI Integrins alpha chain 1.8E-5
Pfam IPR000413 EMBL-EBI Integrins alpha chain 1.8E-5
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000004286 1 429-451
Sequence
Target Sequence 
>C. ELEGANS:184942_AT
gcggcaaagctgtcggaatgggttcaggaaagcttcacaattgatgcatcattggttgaa
atgtttgatgaaccagaaggagaattcaagtttatgggtttacgaccaaaacacgagaaa
tctctaatgttcaagattagtcactcggaaaaaacttgcaagatctatcatgataagatt
gaaacaatgggagcaattgttcagagttatgccaatgtcttcaaggaagctgatgaaatt
ttggaggagattgatcctatgacagaagtgcgtgatagattaactgctgaattgcaagaa
agacaagcagctgtgaaagagattatcattcgtgctgaagattcaattgcaattgataat
ataccagatgccagaaaattttatattcgtctcaaagctaacgatgctgcagctcgacaa
gctgctcagttgagatggaacaaccaagaacgatgtgtgaaatcgcttcgtcgactcaat
aagattatcgaaaattgttcacgactgagagtcggagaacccggaagacaaatagttgtc
tcgtgtcgatctgcaatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCGGCAAAGCTGTCGGAATGGGTTC 279 289 1498 Antisense
GAAAGCTTCACAATTGATGCATCAT 459 359 1525 Antisense
GTTCAGAGTTATGCCAATGTCTTCA 218 445 1696 Antisense
GATTGATCCTATGACAGAAGTGCGT 551 433 1746 Antisense
GATTATCATTCGTGCTGAAGATTCA 541 429 1818 Antisense
ATTTTATATTCGTCTCAAAGCTAAC 218 15 1875 Antisense
GCTAACGATGCTGCAGCTCGACAAG 116 303 1894 Antisense
AGCTCGACAAGCTGCTCAGTTGAGA 288 81 1908 Antisense
GTGTGAAATCGCTTCGTCGACTCAA 685 487 1952 Antisense
GACTGAGAGTCGGAGAACCCGGAAG 477 371 2000 Antisense
AGTTGTCTCGTGTCGATCTGCAATT 552 63 2031 Antisense
Sequence Source Affymetrix Proprietary Database