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[189198_s_at] Band 4.1 domain

Description F43D9.1 /REP_DB=WormBase Gene ID /WP=CE20786 /TR=Q20362 /GB=CAA84702.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Band 4.1 domain
Cluster 6grp_highest_10_10 > 70      6grp_high1_10_10 > 08      4grp_high_8_8 > 46      6grp_highest_nonorm > 80      6grp_total > 19      4grp_total > 49      6grp_highest_sub > De      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 218
1 2 3 4 range
A 138.8
(-3)
P 		188.7
(-1)
P 		288.4
(3)
P 		139.1
(-3)
P 		150
B 109
(-3)
P 		287.5
(3)
P 		250.4
(1.8)
P 		135.1
(-2.1)
P 		179
C 140.2
(-3)
P 		327.4
(3)
P 		291.4
(1.8)
P 		162.7
(-2.3)
A 		187
avr 129.3
(-3) 		267.9
(2.6) 		276.7
(3) 		145.6
(-2.3) 		147

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 244
1 2 3 4 5 6 range
A 289.5
(3)
P 		182.1
(-1.1)
P 		133.5
(-3)
P 		222.8
(0.4)
P 		202.8
(-0.3)
P 		233.9
(0.9)
P 		156
B 308.7
(3)
P 		142.5
(-2.6)
P 		144.1
(-2.6)
P 		216.4
(-0.1)
P 		164.3
(-1.9)
P 		131.8
(-3)
P 		177
C 376.2
(3)
P 		189.4
(-1.8)
P 		207.4
(-1.3)
P 		191.7
(-1.7)
P 		267.6
(0.2)
P 		140.9
(-3)
P 		235
avr 324.8
(3) 		171.3
(-2.6) 		161.7
(-3) 		210.3
(-1.2) 		211.6
(-1.2) 		168.9
(-2.7) 		163
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 81
1 2 3 4 range
A 50.5
(0.3)
P 		41
(-0.8)
P 		75.4
(3)
P 		20.4
(-3)
P 		55
B 34.8
(-2.1)
P 		71
(3)
P 		58
(1.2)
P 		28.8
(-3)
P 		42
C 46.4
(-1.5)
P 		94.1
(2.4)
P 		101.6
(3)
P 		27.4
(-3)
A 		74
avr 43.9
(-0.9) 		68.7
(1.9) 		78.3
(3) 		25.5
(-3) 		53

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 110
1 2 3 4 5 6 range
A 53.4
(1.1)
P 		64.8
(3)
P 		29.1
(-3)
P 		56.5
(1.6)
P 		61.2
(2.4)
P 		56.9
(1.7)
P 		36
B 107.4
(3)
P 		47.4
(-2)
P 		35
(-3)
P 		57.3
(-1.2)
P 		66.7
(-0.4)
P 		49.1
(-1.8)
P 		72
C 139.4
(3)
P 		57.8
(-1.9)
P 		52.8
(-2.2)
P 		38.6
(-3)
P 		86.6
(-0.1)
P 		47.2
(-2.5)
P 		101
avr 100.1
(3) 		56.7
(-1.3) 		39
(-3) 		50.8
(-1.8) 		71.5
(0.2) 		51.1
(-1.8) 		61
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189198_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6694
Sequence Type Exemplar sequence
Representative Public ID F43D9.1 NCBI
Target Description F43D9.1 /REP_DB=WormBase Gene ID /WP=CE20786 /TR=Q20362 /GB=CAA84702.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Band 4.1 domain
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_066912(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066912 NCBI Caenorhabditis elegans F43D9.1 (F43D9.1) mRNA, complete cds. 11/11 None
GENEFINDER00000024079 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:10488181:10499856:1 11/11 None
SNAP00000024068 ENSEMBL cdna:SNAP chromosome:CEL140:III:10493584:10499856:1 11/11 None
F43D9.1 ENSEMBL cdna:known chromosome:CEL140:III:10488010:10500148:1 gene:F43D9.1 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
chrIII:10488005-10499852(+) 97.34 100.0
Public Domain and Genome References
Gene Title Band 4.1 domain
Ensembl F43D9.1
Entrez Gene 176469 Entrez gene
SwissProt Q20362 EMBL-EBI
WormBase CE32661 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8158 hedgehog receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA84702 Hypothetical protein F43D9.1 [Caenorhabditis elegans] emb|CAA84700.2| Hypothetical protein F43D9.1 [Caenorhabditis elegans] ref|NP_499313.2| F43D9.1 [Caenorhabditis elegans] 0.0
blast CAE71457 Hypothetical protein CBG18375 [Caenorhabditis briggsae] 0.0
blast XP_795708 PREDICTED: similar to CG11212-PA [Strongylocentrotus purpuratus] 1.0E-18
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499313.2 12 207-229,449-471,478-500,510-532,553-575,585-607,671-693,865-887,894-916,921-943,964-986,991-1013
F43D9.1 12 207-229,449-471,478-500,510-532,553-575,585-607,671-693,865-887,894-916,921-943,964-986,991-1013
GENEFINDER00000024079 11 209-231,471-493,503-525,546-568,578-600,664-686,858-880,887-909,914-936,957-979,984-1006
SNAP00000024068 9 22-44,72-94,104-126,190-212,384-406,413-435,440-462,483-505,510-532
Sequence
Target Sequence 
>C. ELEGANS:189198_S_AT
tctcgtgcacctcatttcagtgcgcagagctctgttgtgatatggatgatgaatcatcga
tttattatattccaacaggtggccgagctattcatccggaaggcctctaccatcatccat
cgtacacttatacagtacccaaacctcttatgaatgccccaccacctcactatttggcta
ttgctgctccgccagtaaactcgatttacgggcagacagaatacacgtcgagaggtgaaa
tgaagagagtttcgagaagaaatcgaaggcatagtgaatcttcaattggagaaactgaaa
atgatggaacaccgggaagagatcgagaatcgaggagacgcagacaacgacgagccgtca
gcagagatagcgagatttatgaggatctaccgagtccgcgagcagtaaactcttctcgat
ctacatcaccccgccgtcagcagcctggaagtatgcgccgcccgaataatcaccactcgg
gatcccaaaatccacgtccacaggcgttccattacgatgagggagctcaatggcgtccat
atgtacaaccatctccat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTCGTGCACCTCATTTCAGTGCGC 592 609 3092 Antisense
CGAGCTATTCATCCGGAAGGCCTCT 631 249 3175 Antisense
ACCATCATCCATCGTACACTTATAC 61 87 3200 Antisense
TACCCAAACCTCTTATGAATGCCCC 65 649 3227 Antisense
CCACCACCTCACTATTTGGCTATTG 595 273 3250 Antisense
GTAAACTCTTCTCGATCTACATCAC 551 461 3496 Antisense
CGCCGTCAGCAGCCTGGAAGTATGC 659 255 3523 Antisense
GAAGTATGCGCCGCCCGAATAATCA 367 335 3539 Antisense
CACTCGGGATCCCAAAATCCACGTC 637 107 3565 Antisense
GTCCACAGGCGTTCCATTACGATGA 710 477 3587 Antisense
CGTCCATATGTACAACCATCTCCAT 604 245 3625 Antisense
Sequence Source Affymetrix Proprietary Database