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[186995_at]

Description Y65B4BR.2 /REP_DB=WormBase Gene ID /WP=CE24560 /TR=Q9N2Z5 /GB=AAF60856.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 06      6grp_high1_10_10 > 60      6grp_highest_nonorm > 70      6grp_total > 60      4grp_total > 49      6grp_highest_sub > 04      6grp_high1_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 553
1 2 3 4 range
A 5.5
(-3)
A 		557
(3)
P 		403
(1.3)
P 		7.2
(-3)
A 		552
B 5.7
(-3)
A 		529
(3)
P 		423.4
(1.8)
P 		49
(-2.5)
A 		523
C 49.7
(-2.5)
A 		517
(2.6)
P 		553.4
(3)
P 		4.5
(-3)
A 		549
avr 20.3
(-3) 		534.3
(3) 		459.9
(2.1) 		20.2
(-3) 		514

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 403
1 2 3 4 5 6 range
A 263.8
(-0.4)
P 		244.8
(-0.7)
P 		310.5
(0.3)
P 		493.8
(3)
P 		230.3
(-0.9)
P 		91
(-3)
P 		403
B 320.2
(2.3)
P 		272.5
(1.1)
P 		278.3
(1.2)
P 		345.2
(3)
P 		258.5
(0.7)
P 		118
(-3)
P 		227
C 287.3
(1.6)
P 		283.1
(1.5)
P 		245.5
(0.6)
P 		346.5
(3)
P 		199.5
(-0.5)
P 		95.2
(-3)
P 		251
avr 290.4
(0.9) 		266.8
(0.4) 		278.1
(0.6) 		395.2
(3) 		229.4
(-0.4) 		101.4
(-3) 		294
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 192
1 2 3 4 range
A 2
(-3)
A 		120.9
(3)
P 		105.4
(2.2)
P 		1.1
(-3)
A 		120
B 1.8
(-3)
A 		130.6
(3)
P 		98.1
(1.5)
P 		10.4
(-2.6)
A 		129
C 16.4
(-2.5)
A 		148.6
(1.6)
P 		192.9
(3)
P 		0.8
(-3)
A 		192
avr 6.7
(-2.9) 		133.4
(3) 		132.1
(2.9) 		4.1
(-3) 		129

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 103
1 2 3 4 5 6 range
A 48.6
(-1.5)
P 		87.1
(0.8)
P 		67.6
(-0.4)
P 		125.3
(3)
P 		69.5
(-0.2)
P 		22.1
(-3)
P 		103
B 111.4
(3)
P 		90.7
(1.2)
P 		67.6
(-0.9)
P 		91.4
(1.2)
P 		105
(2.4)
P 		44
(-3)
P 		67
C 106.5
(3)
P 		86.4
(1.4)
P 		62.5
(-0.5)
P 		69.7
(0)
P 		64.6
(-0.4)
P 		31.9
(-3)
P 		75
avr 88.8
(2.4) 		88.1
(2.3) 		65.9
(0.2) 		95.5
(3) 		79.7
(1.5) 		32.7
(-3) 		63
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186995_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2565
Sequence Type Exemplar sequence
Representative Public ID Y65B4BR.2 NCBI
Target Description Y65B4BR.2 /REP_DB=WormBase Gene ID /WP=CE24560 /TR=Q9N2Z5 /GB=AAF60856.1 /SUBMIT=ST.LOUIS /CHR=1 /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_058351(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058351 NCBI Caenorhabditis elegans Y65B4BR.2 (Y65B4BR.2) mRNA, complete cds. 11/11 None
SNAP00000036981 ENSEMBL cdna:SNAP chromosome:CEL140:I:550711:561566:1 11/11 None
GENEFINDER00000036997 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:557509:561989:1 11/11 None
Y65B4BR.2 ENSEMBL cdna:known chromosome:CEL140:I:557434:561566:1 gene:Y65B4BR.2 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
chrI:556359-561566(+) 99.3 100.0
Public Domain and Genome References
Gene Title
Ensembl Y65B4BR.2
Entrez Gene 171648 Entrez gene
SwissProt Q9N2Z5 EMBL-EBI
WormBase CE29899 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6810 transport inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5215 transporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAF60855 Patched related family protein 21 [Caenorhabditis elegans] ref|NP_490751.1| PaTched Related family member (ptr-21) [Caenorhabditis elegans] 0.0
blast CAE61292 Hypothetical protein CBG05116 [Caenorhabditis briggsae] 0.0
blast AAB42308 Patched related family protein 5 [Caenorhabditis elegans] ref|NP_510810.3| PaTched Related family member (ptr-5) [Caenorhabditis elegans] 1.0E-155
blast AAF60856 Hypothetical protein Y65B4BR.2 [Caenorhabditis elegans] ref|NP_490752.2| Y65B4BR.2 [Caenorhabditis elegans] 1.0E-140
blast CAE61296 Hypothetical protein CBG05120 [Caenorhabditis briggsae] 1.0E-125
blast CAE61296 Hypothetical protein CBG05120 [Caenorhabditis briggsae] 1.0E-124
blast CAA92030 Hypothetical protein W04G3.8 [Caenorhabditis elegans] emb|CAB01721.1| Hypothetical protein W04G3.8 [Caenorhabditis elegans] ref|NP_509849.1| W04G3.8 [Caenorhabditis elegans] 2.0E-13
Protein Domains
Database ID Description E-Value
Pfam IPR003392 EMBL-EBI Patched family 6.7E-57
Pfam IPR003392 EMBL-EBI Patched family 4.0E-72
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_490752.2 1 5-27
Y65B4BR.2 1 5-27
SNAP00000036981 10 49-71,291-313,323-345,358-380,395-417,424-446,483-505,697-719,723-745,752-774
GENEFINDER00000036997 1 5-27
Sequence
Target Sequence 
>C. ELEGANS:186995_AT
agctggcaaatcttctccaatctctccaaatggatgaagtagccacaaaagcctacaact
ccctattcttctcaatggctgatatgcaaatcgaaaagttcatgggtaaatggtacacag
ttgttgattcgaaagaagttcataaagaggattgttcaattttctatttcgatatggtac
ttcaaactccatacaccgcaacattcacctcaaagcagtacggagtgattaataatgatg
tcgtcaccaatgaggggtacggtagtatggttggtccagagcccggagccgttcttatta
caactggtagtgaaagggatcagtgtccatttttccctgtacgaatcggtggcttgagtg
acgaaggagaatatcaatacatgatcttaagtacaccactgaagtatccaacgatggtct
tgacaagagacctaaccctattcgaaacgaaatggaagcgagaagtgtatgattttgttg
agaagaatggtttcatgagtccaatggcagcattgaacactcgtctcca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCTGGCAAATCTTCTCCAATCTCT 661 81 425 Antisense
ATGGTACTTCAAACTCCATACACCG 394 51 598 Antisense
GATGTCGTCACCAATGAGGGGTACG 242 409 661 Antisense
TAGTATGGTTGGTCCAGAGCCCGGA 597 653 687 Antisense
CCGGAGCCGTTCTTATTACAACTGG 202 263 707 Antisense
GGGATCAGTGTCCATTTTTCCCTGT 614 495 740 Antisense
TTTTCCCTGTACGAATCGGTGGCTT 102 675 755 Antisense
AGTACACCACTGAAGTATCCAACGA 6 63 814 Antisense
GACAAGAGACCTAACCCTATTCGAA 41 365 846 Antisense
TGGTTTCATGAGTCCAATGGCAGCA 508 549 912 Antisense
TGGCAGCATTGAACACTCGTCTCCA 140 547 929 Antisense
Sequence Source Affymetrix Proprietary Database