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[188399_s_at]

Description Y105C5B.21 /REP_DB=WormBase Gene ID /WP=CE24071 /GEN=jac-1 /TR=Q9U308 /GB=CAB60320.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 70      6grp_high1_10_10 > 17      4grp_highest_8_8 > 62      4grp_high_8_8 > 26      6grp_highest_nonorm > 70      6grp_total > 07      4grp_total > 37      6grp_highest_sub > De      6grp_cgc > 12      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 170
1 2 3 4 range
A 274.6
(2.6)
P 		264.2
(0.8)
P 		241.7
(-3)
P 		276.8
(3)
P 		35
B 397.3
(3)
P 		281.3
(-2.3)
P 		265.2
(-3)
P 		336.3
(0.2)
P 		132
C 341.1
(3)
P 		332
(2.5)
P 		227.7
(-3)
P 		303.4
(1)
P 		113
avr 337.7
(3) 		292.5
(0.1) 		244.9
(-3) 		305.5
(0.9) 		93

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 502
1 2 3 4 5 6 range
A 489.6
(3)
P 		321.7
(-0)
P 		230.4
(-1.7)
P 		157.5
(-3)
P 		166.8
(-2.8)
P 		189.8
(-2.4)
P 		332
B 450.5
(3)
P 		253.8
(-0.4)
P 		125.3
(-2.7)
P 		206.4
(-1.3)
P 		206.6
(-1.3)
P 		108
(-3)
P 		343
C 609.5
(3)
P 		284.8
(-1.3)
P 		195.9
(-2.5)
P 		155.7
(-3)
P 		241
(-1.9)
P 		169.8
(-2.8)
P 		454
avr 516.5
(3) 		286.8
(-0.8) 		183.9
(-2.5) 		173.2
(-2.7) 		204.8
(-2.2) 		155.9
(-3) 		361
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 86
1 2 3 4 range
A 100
(3)
P 		57.3
(-1.3)
P 		63.2
(-0.7)
P 		40.5
(-3)
P 		60
B 126.7
(3)
P 		69.5
(-2.3)
P 		61.5
(-3)
P 		71.7
(-2.1)
P 		65
C 112.9
(3)
P 		95.4
(1.3)
P 		79.4
(-0.3)
P 		51.2
(-3)
P 		62
avr 113.2
(3) 		74.1
(-1) 		68
(-1.6) 		54.5
(-3) 		59

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 196
1 2 3 4 5 6 range
A 90.3
(1.1)
P 		114.4
(3)
P 		50.2
(-2.2)
P 		39.9
(-3)
P 		50.3
(-2.2)
P 		46.2
(-2.5)
P 		75
B 156.7
(3)
P 		84.5
(-0.4)
P 		30.4
(-3)
P 		54.7
(-1.8)
P 		83.9
(-0.5)
P 		40.3
(-2.5)
P 		126
C 225.9
(3)
P 		86.9
(-1.3)
P 		49.9
(-2.4)
P 		31.3
(-3)
P 		78
(-1.6)
P 		56.8
(-2.2)
P 		195
avr 157.6
(3) 		95.3
(-0.2) 		43.5
(-2.9) 		42
(-3) 		70.7
(-1.5) 		47.8
(-2.7) 		116
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188399_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9717
Sequence Type Exemplar sequence
Representative Public ID Y105C5B.21 NCBI
Target Description Y105C5B.21 /REP_DB=WormBase Gene ID /WP=CE24071 /GEN=jac-1 /TR=Q9U308 /GB=CAB60320.1 /SUBMIT=HINXTON /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_070509(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070509 NCBI Caenorhabditis elegans Juxtamembrane domain-Associated Catenin family member (jac-1) (jac-1) mRNA, complete cds. 11/11 None
SNAP00000018405 ENSEMBL cdna:SNAP chromosome:CEL140:IV:15998090:16006304:-1 11/11 None
GENEFINDER00000018427 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:15998090:16006304:-1 11/11 None
Y105C5B.21 ENSEMBL cdna:known chromosome:CEL140:IV:15997819:16026808:-1 gene:Y105C5B.21 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:15998095-16017456(-) 98.87 100.0
Public Domain and Genome References
Gene Title
Gene Symbol jac-1
Ensembl Y105C5B.21
Entrez Gene 178451 Entrez gene
SwissProt Q9U308 EMBL-EBI
WormBase CE32231 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB60320 Hypothetical protein Y105C5B.21 [Caenorhabditis elegans] ref|NP_502910.2| Juxtamembrane domain-Associated Catenin family member (jac-1) [Caenorhabditis elegans] 0.0
blast CAE68067 Hypothetical protein CBG13693 [Caenorhabditis briggsae] 0.0
blast T26395 hypothetical protein Y105C5B.s - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003961 EMBL-EBI Fibronectin, type III 6.5E-5
Pfam IPR003961 EMBL-EBI Fibronectin, type III 5.8E-16
Pfam IPR003961 EMBL-EBI Fibronectin, type III 3.6E-11
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.5E-7
Pfam IPR000225 EMBL-EBI Armadillo 6.6E-11
Pfam IPR000225 EMBL-EBI Armadillo 8.6E-10
Pfam IPR000225 EMBL-EBI Armadillo 4.0E-6
Pfam IPR003961 EMBL-EBI Fibronectin, type III 5.8E-16
Pfam IPR003961 EMBL-EBI Fibronectin, type III 3.6E-11
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.5E-7
Pfam IPR000225 EMBL-EBI Armadillo 6.6E-11
Pfam IPR000225 EMBL-EBI Armadillo 8.6E-10
Pfam IPR000225 EMBL-EBI Armadillo 4.0E-6
Pfam IPR003961 EMBL-EBI Fibronectin, type III 5.8E-16
Pfam IPR003961 EMBL-EBI Fibronectin, type III 3.6E-11
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.5E-7
Pfam IPR000225 EMBL-EBI Armadillo 6.6E-11
Pfam IPR000225 EMBL-EBI Armadillo 8.6E-10
Pfam IPR000225 EMBL-EBI Armadillo 4.0E-6
Sequence
Target Sequence 
>C. ELEGANS:188399_S_AT
ggaaaatacgcactccgtgacttcctcgacaagctccccgagccgggatctccacgtcgt
tctgcaatctctgatcagacaattggtgcggtactcggtatcctattcgagattgttaga
agctcagcggcctatacaaaggatgttcatgagctgaagggtacggacaaattacgagca
ctgtctcgttcctatccaacatactctcaccgagtttgtaagtacgctagtcaagtactg
tatgtgatgtggcagcacaaggagcttcacgatggattcaagagaagcgggctcaaggaa
gcagacttctactcgggaactgcgagacgaggcgattcctctacactggcccgtccaatc
tcatcccaaggtcgtgagcgtccatcaatgcaccaactcgacgaaactctctcctctggc
ggtgggtacggtaccatggagagcaacaatcgtgccgggaccctccgaccggcaagtgcc
acgtcacaaaccatccaacgccgttatgaccaagtgccacgtgacggacccgtctattcc
t

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAAAATACGCACTCCGTGACTTCC 141 529 2953 Antisense
CAATTGGTGCGGTACTCGGTATCCT 88 179 3032 Antisense
AGAAGCTCAGCGGCCTATACAAAGG 394 71 3070 Antisense
TTACGAGCACTGTCTCGTTCCTATC 362 679 3124 Antisense
GAAGCAGACTTCTACTCGGGAACTG 164 341 3250 Antisense
GCGAGACGAGGCGATTCCTCTACAC 546 289 3274 Antisense
ATCTCATCCCAAGGTCGTGAGCGTC 67 31 3310 Antisense
TCGTGAGCGTCCATCAATGCACCAA 606 605 3324 Antisense
GGAGAGCAACAATCGTGCCGGGACC 401 519 3390 Antisense
CCAACGCCGTTATGACCAAGTGCCA 287 275 3447 Antisense
CCACGTGACGGACCCGTCTATTCCT 471 273 3469 Antisense
Sequence Source Affymetrix Proprietary Database