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[194055_at] Lectin C-type domain short and long forms, von Willebrand factor type A domain

Description Y39A1B.1 /REP_DB=WormBase Gene ID /WP=CE19143 /TR=Q9XXS0 /GB=CAA16338.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Lectin C-type domain short and long forms, von Willebrand factor type A domain
Cluster 6grp_total > 18      4grp_total > 46      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 44
1 2 3 4 range
A 46.1
(2.3)
A 		8.9
(-3)
A 		33.7
(0.5)
A 		51.2
(3)
A 		42
B 40.5
(3)
A 		25.2
(0.3)
A 		16.7
(-1.3)
A 		7.1
(-3)
A 		33
C 26.4
(-0.1)
A 		47.8
(3)
A 		17.6
(-1.4)
A 		6.8
(-3)
A 		41
avr 37.7
(3) 		27.3
(-0.9) 		22.7
(-2.6) 		21.7
(-3) 		16

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 71
1 2 3 4 5 6 range
A 74
(3)
A 		6.8
(-3)
A 		27.3
(-1.2)
A 		11.8
(-2.6)
A 		19.1
(-1.9)
A 		11.6
(-2.6)
A 		67
B 54.2
(3)
A 		7.4
(-2.8)
A 		5.6
(-3)
A 		5.8
(-3)
A 		5.8
(-3)
A 		15
(-1.8)
A 		49
C 29.5
(-0.2)
A 		26.5
(-0.5)
A 		58.6
(3)
A 		3.3
(-3)
A 		34.4
(0.4)
A 		23.6
(-0.8)
A 		55
avr 52.6
(3) 		13.6
(-2.1) 		30.5
(0.1) 		7
(-3) 		19.8
(-1.3) 		16.7
(-1.7) 		46
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16
1 2 3 4 range
A 16.8
(3)
A 		1.9
(-3)
A 		8.8
(-0.2)
A 		7.5
(-0.7)
A 		15
B 12.9
(3)
A 		6.2
(-0.5)
A 		3.9
(-1.7)
A 		1.5
(-3)
A 		11
C 8.8
(0.7)
A 		13.7
(3)
A 		6.1
(-0.6)
A 		1.1
(-3)
A 		13
avr 12.8
(3) 		7.3
(-0.5) 		6.3
(-1.1) 		3.4
(-3) 		9

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 13.6
(3)
A 		2.4
(-3)
A 		5.9
(-1.1)
A 		3
(-2.7)
A 		5.8
(-1.2)
A 		2.8
(-2.8)
A 		11
B 18.9
(3)
A 		2.5
(-2.6)
A 		1.4
(-3)
A 		1.5
(-3)
A 		2.3
(-2.7)
A 		5.6
(-1.6)
A 		18
C 11
(1.4)
A 		8.1
(0.1)
A 		14.9
(3)
A 		0.7
(-3)
A 		11.1
(1.4)
A 		7.9
(0)
A 		14
avr 14.5
(3) 		4.3
(-1.8) 		7.4
(-0.3) 		1.7
(-3) 		6.4
(-0.8) 		5.4
(-1.3) 		13
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 194055_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6886
Sequence Type Exemplar sequence
Representative Public ID Y39A1B.1 NCBI
Target Description Y39A1B.1 /REP_DB=WormBase Gene ID /WP=CE19143 /TR=Q9XXS0 /GB=CAA16338.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Lectin C-type domain short and long forms, von Willebrand factor type A 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_066980(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066980 NCBI Caenorhabditis elegans Y39A1B.1 (Y39A1B.1) mRNA, complete cds. 11/11 None
GENEFINDER00000005069 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:10781758:10796381:1 11/11 None
SNAP00000005067 ENSEMBL cdna:SNAP chromosome:CEL140:III:10792142:10796246:1 11/11 None
Y39A1B.1 ENSEMBL cdna:known chromosome:CEL140:III:10794226:10796246:1 gene:Y39A1B.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:10794221-10796242(+) 99.05 100.0
Public Domain and Genome References
Gene Title Lectin C-type domain short and long forms, von Willebrand factor type A domain
Ensembl Y39A1B.1
Entrez Gene 189714 Entrez gene
SwissProt Q9XXS0 EMBL-EBI
WormBase CE19143 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
5529 sugar binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA16338 Hypothetical protein Y39A1B.1 [Caenorhabditis elegans] ref|NP_499381.1| Y39A1B.1 [Caenorhabditis elegans] 0.0
blast CAA16339 Hypothetical protein Y39A1B.2 [Caenorhabditis elegans] ref|NP_499380.1| PaTched Related family member (ptr-19) [Caenorhabditis elegans] 0.0
blast CAE71402 Hypothetical protein CBG18310 [Caenorhabditis briggsae] 0.0
blast CAA88986 Hypothetical protein ZK666.7 [Caenorhabditis elegans] ref|NP_496260.1| ZK666.7 [Caenorhabditis elegans] 1.0E-153
blast CAA88986 Hypothetical protein ZK666.7 [Caenorhabditis elegans] ref|NP_496260.1| ZK666.7 [Caenorhabditis elegans] 1.0E-146
blast CAE59672 Hypothetical protein CBG03094 [Caenorhabditis briggsae] emb|CAE59670.1| Hypothetical protein CBG03092 [Caenorhabditis briggsae] 1.0E-137
Protein Domains
Database ID Description E-Value
Pfam IPR002035 EMBL-EBI von Willebrand factor, type A 5.9E-22
Pfam IPR003392 EMBL-EBI Patched family 3.1E-91
Pfam IPR003392 EMBL-EBI Patched family 6.5E-65
Pfam IPR002035 EMBL-EBI von Willebrand factor, type A 5.9E-22
Pfam IPR002035 EMBL-EBI von Willebrand factor, type A 5.9E-22
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000005069 12 20-42,293-315,322-344,354-376,396-418,428-450,501-523,705-727,734-756,760-782,799-821,836-858
Sequence
Target Sequence 
>C. ELEGANS:194055_AT
tgacaattgccacagttgcgtaccgccaagacattgttgttggtttcaacgacgctctga
ccaaaattgcatcgcctggatacaatttcacaaatttcaatggaaataatgtggtttctg
aactcaaaaccacaatgattcaagtcaattgctattgtccaaatgaatggtttcaaatga
gaagctcatccaaatatggagtatgtattcgaccatttgctacgatggcaacgagaactg
cagcaagattatcttgcagaaatcaatggaataatgcttatatgctcaatgagtttacac
agatgaaacatgattttgttctccaggttattggaaatatcactacattcacgcaacctt
attatatcggcttatcatattccaatggaaattggcaatgggatcaaccaaacgggcaac
cacttataccacttgaacactggaataattggagtcccgggtatccgacagcttcatcga
ccgacacggccgtaatcaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGACAATTGCCACAGTTGCGTACCG 495 569 566 Antisense
GCGTACCGCCAAGACATTGTTGTTG 228 289 583 Antisense
TGTTGGTTTCAACGACGCTCTGACC 504 561 603 Antisense
GCATCGCCTGGATACAATTTCACAA 118 311 634 Antisense
ACATGATTTTGTTCTCCAGGTTATT 285 107 873 Antisense
AATATCACTACATTCACGCAACCTT 199 173 901 Antisense
CACGCAACCTTATTATATCGGCTTA 542 199 915 Antisense
GGGATCAACCAAACGGGCAACCACT 598 493 965 Antisense
GGCAACCACTTATACCACTTGAACA 601 533 980 Antisense
AATTGGAGTCCCGGGTATCCGACAG 91 173 1012 Antisense
ATCGACCGACACGGCCGTAATCAAT 478 35 1041 Antisense
Sequence Source Affymetrix Proprietary Database