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[190821_at] membrane glycoprotein

Description R07B1.3 /REP_DB=WormBase Gene ID /WP=CE01629 /TR=SW:Q09606 /GB=CAA88547.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=membrane glycoprotein
Cluster 6grp_total > 41      4grp_total > 50      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 198
1 2 3 4 range
A 79.6
(-1.3)
M 		134.8
(1.6)
P 		160.4
(3)
P 		47.5
(-3)
A 		113
B 73
(-1.1)
M 		209
(3)
P 		149.3
(1.2)
P 		10.9
(-3)
A 		198
C 83.6
(-1.8)
A 		202.1
(3)
P 		193
(2.6)
P 		53.7
(-3)
A 		148
avr 78.7
(-1.3) 		182
(3) 		167.6
(2.4) 		37.4
(-3) 		145

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 126
1 2 3 4 5 6 range
A 101.2
(1.7)
A 		86.9
(1)
P 		126.7
(3)
P 		103.9
(1.8)
A 		60.7
(-0.4)
A 		9.5
(-3)
A 		117
B 68.9
(-0.9)
P 		135
(3)
P 		116.2
(1.9)
P 		116
(1.9)
A 		85
(0)
A 		33.7
(-3)
A 		101
C 84.8
(0.5)
A 		80.7
(0.1)
A 		109.9
(2.9)
A 		111
(3)
A 		66.3
(-1.2)
A 		47.8
(-3)
A 		63
avr 85
(0.8) 		100.9
(1.9) 		117.6
(3) 		110.3
(2.5) 		70.7
(-0.2) 		30.3
(-3) 		87
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 65
1 2 3 4 range
A 29
(0.8)
M 		29.3
(0.8)
P 		41.9
(3)
P 		7
(-3)
A 		35
B 23.3
(-0.4)
M 		51.6
(3)
P 		34.6
(0.9)
P 		2.3
(-3)
A 		49
C 27.7
(-1.1)
A 		58.1
(2.1)
P 		67.3
(3)
P 		9.1
(-3)
A 		58
avr 26.7
(-0) 		46.3
(2.8) 		47.9
(3) 		6.1
(-3) 		42

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 43
1 2 3 4 5 6 range
A 18.6
(0.4)
A 		30.9
(3)
P 		27.6
(2.3)
P 		26.4
(2.1)
A 		18.3
(0.4)
A 		2.3
(-3)
A 		29
B 24
(-0.9)
P 		44.9
(3)
P 		28.2
(-0.1)
P 		30.7
(0.4)
A 		34.5
(1.1)
A 		12.6
(-3)
A 		32
C 31.4
(3)
A 		24.6
(0.4)
A 		28
(1.7)
A 		22.3
(-0.5)
A 		21.4
(-0.9)
A 		16
(-3)
A 		15
avr 24.7
(0.7) 		33.5
(3) 		27.9
(1.6) 		26.5
(1.2) 		24.7
(0.7) 		10.3
(-3) 		23
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190821_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16924
Sequence Type Exemplar sequence
Representative Public ID R07B1.3 NCBI
Target Description R07B1.3 /REP_DB=WormBase Gene ID /WP=CE01629 /TR=SW:Q09606 /GB=CAA88547.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=membrane glycoprotein
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_077250(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077250 NCBI Caenorhabditis elegans R07B1.3 (R07B1.3) mRNA, complete cds. 11/11 A 
GENEFINDER00000020709 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:9858324:9861301:1 10/11 None
R07B1.3 ENSEMBL cdna:known chromosome:CEL140:X:9858296:9861666:1 gene:R07B1.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000020688 4/11 Cross Hyb Matching Probes None
SNAP00000020689 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:9858323-9861580(+) 100.0 100.0
Public Domain and Genome References
Gene Title membrane glycoprotein
Ensembl R07B1.3
Entrez Gene 181200 Entrez gene
SwissProt Q09606 EMBL-EBI
WormBase CE01629 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7155 cell adhesion inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA88547 Hypothetical protein R07B1.3 [Caenorhabditis elegans] ref|NP_509651.1| R07B1.3 [Caenorhabditis elegans] sp|Q09606|YRN3_CAEEL Hypothetical protein R07B1.3 in chromosome X 0.0
blast CAE58722 Hypothetical protein CBG01907 [Caenorhabditis briggsae] 0.0
blast CAA96619 Hypothetical protein F07A5.3 [Caenorhabditis elegans] ref|NP_492081.1| F07A5.3 [Caenorhabditis elegans] 1.0E-136
blast CAE66601 Hypothetical protein CBG11926 [Caenorhabditis briggsae] 1.0E-121
Protein Domains
Database ID Description E-Value
Pfam IPR002159 EMBL-EBI CD36 antigen 1.0E-126
Pfam IPR002159 EMBL-EBI CD36 antigen 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509651.1 2 7-29,503-525
R07B1.3 2 7-29,503-525
GENEFINDER00000020709 1 7-29
Sequence
Target Sequence 
>C. ELEGANS:190821_AT
tttgcagttccttatgaggagtttgatacgactttggaaaaaaacgcgggatttcgatac
aagaatcaggagaatgtagattacttcccagattggtgtgataagaacacaactacttca
ttgtcacaatgccaaaaaacggcaaacggtacttttcttttgccgcctggaattttccca
ctcgtctgttatccgggtcataatgcgcagccgccatttacagttctagtgtcacccccg
cactttttatactctcctcccgaagttcagcatcatctttctgggatgaacccagatcca
gaaaagcataaaccaatggtttttcaccaagaaaaaacctctggcaccgctttgcaagtc
gacgttagattccaagtgaacttaccggttgtgaacaacaaaggatcaataatgtcatca
caaatgcccaatgtgatcattccgttgttttatgaggactcacatgctctggtcaaagac
tttgtaatggacactgtttggctcggagttatcattgttcccaggattattgaatatttg
aaatttgtattgagttttatatccatttgcatactgacaacacttttagttatacggg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTGCAGTTCCTTATGAGGAGTTTG 159 667 994 Antisense
GAGGAGTTTGATACGACTTTGGAAA 82 405 1009 Antisense
GGAGAATGTAGATTACTTCCCAGAT 588 519 1062 Antisense
GATTACTTCCCAGATTGGTGTGATA 613 429 1072 Antisense
GAACACAACTACTTCATTGTCACAA 562 351 1098 Antisense
CTCGTCTGTTATCCGGGTCATAATG 569 231 1174 Antisense
TCATAATGCGCAGCCGCCATTTACA 307 613 1191 Antisense
GCCATTTACAGTTCTAGTGTCACCC 694 279 1206 Antisense
CTCCCGAAGTTCAGCATCATCTTTC 618 233 1250 Antisense
GCATCATCTTTCTGGGATGAACCCA 489 309 1263 Antisense
CTGACAACACTTTTAGTTATACGGG 94 237 1567 Antisense
Sequence Source Affymetrix Proprietary Database