[Home] | [Total List]

[185425_at]

Description Y38E10A.5 /REP_DB=WormBase Gene ID /WP=CE21585 /TR=Q9NAK5 /GB=CAB54396.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 21      4grp_total > 58      6grp_cgc > 72      6grp_cgc_sub > 02      6grp_total_sub > Hat      6grp_rule_based > S2      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2404
1 2 3 4 range
A 1250.7
(0.1)
P 		2045
(2.1)
P 		2417.1
(3)
P 		19.1
(-3)
A 		2398
B 1081.3
(-0.1)
P 		2105.5
(2.6)
P 		2240.8
(3)
P 		13.6
(-3)
A 		2227
C 1113
(0.1)
P 		1898.3
(2.3)
P 		2155.1
(3)
P 		23.6
(-3)
A 		2132
avr 1148.3
(0) 		2016.3
(2.3) 		2271
(3) 		18.8
(-3) 		2252

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 214
1 2 3 4 5 6 range
A 224
(0.5)
P 		282.3
(3)
P 		238.9
(1.1)
P 		221.8
(0.4)
P 		154.8
(-2.5)
A 		143.3
(-3)
A 		139
B 171.9
(-0.3)
A 		264.6
(3)
P 		183.3
(0.1)
M 		143.7
(-1.3)
P 		124.3
(-2)
P 		94.6
(-3)
A 		170
C 164.1
(-2.1)
M 		262.2
(1.4)
P 		308.5
(3)
P 		204.6
(-0.7)
P 		137.8
(-3)
P 		138.5
(-3)
A 		171
avr 186.7
(-0.5) 		269.7
(3) 		243.6
(1.9) 		190
(-0.3) 		139
(-2.4) 		125.5
(-3) 		144
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 748
1 2 3 4 range
A 455.4
(1.3)
P 		443.9
(1.2)
P 		631.9
(3)
P 		2.8
(-3)
A 		629
B 344.8
(1)
P 		520
(3)
P 		519.2
(3)
P 		2.9
(-3)
A 		517
C 368.4
(-0.1)
P 		545.8
(1.4)
P 		751.1
(3)
P 		4
(-3)
A 		747
avr 389.5
(0.7) 		503.2
(1.8) 		634.1
(3) 		3.2
(-3) 		631

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 66
1 2 3 4 5 6 range
A 41.3
(-2.4)
P 		100.4
(3)
P 		52
(-1.4)
P 		56.3
(-1)
P 		46.7
(-1.9)
A 		34.9
(-3)
A 		66
B 59.8
(-0.2)
A 		88.1
(3)
P 		44.5
(-2)
M 		38.1
(-2.7)
P 		50.5
(-1.3)
P 		35.3
(-3)
A 		53
C 60.8
(0)
M 		80
(3)
P 		78.5
(2.8)
P 		41.2
(-3)
P 		44.6
(-2.5)
P 		46.4
(-2.2)
A 		39
avr 54
(-1.2) 		89.5
(3) 		58.3
(-0.7) 		45.2
(-2.3) 		47.3
(-2) 		38.9
(-3) 		51
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 185425_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3065
Sequence Type Exemplar sequence
Representative Public ID Y38E10A.5 NCBI
Target Description Y38E10A.5 /REP_DB=WormBase Gene ID /WP=CE21585 /TR=Q9NAK5 /GB=CAB54396.1 /SUBMIT=HINXTON /CHR=2 /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_064287(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064287 NCBI Caenorhabditis elegans C-type LECtin family member (clec-4) (clec-4) mRNA, complete cds. 11/11 None
SNAP00000017428 ENSEMBL cdna:SNAP chromosome:CEL140:II:12578319:12580955:-1 11/11 None
GENEFINDER00000017468 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:12578319:12581291:-1 11/11 None
Y38E10A.5 ENSEMBL cdna:known chromosome:CEL140:II:12578319:12580955:-1 gene:Y38E10A.5 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
chrII:12578315-12581288(-) 91.81 100.0
Public Domain and Genome References
Gene Title
Gene Symbol clec-4
Ensembl Y38E10A.5
Entrez Gene 189654 Entrez gene
SwissProt Q9NAK5 EMBL-EBI
WormBase CE28701 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 CAB54396 Hypothetical protein Y38E10A.5 [Caenorhabditis elegans] ref|NP_496688.1| C-type LECtin family member (clec-4) [Caenorhabditis elegans] 0.0
blast AAB70944 C-type lectin protein 2 [Caenorhabditis elegans] ref|NP_494427.1| C-type LECtin family member (clec-2) [Caenorhabditis elegans] 1.0E-132
blast CAE65367 Hypothetical protein CBG10312 [Caenorhabditis briggsae] 1.0E-131
Protein Domains
Database ID Description E-Value
Pfam IPR001304 EMBL-EBI C-type lectin 3.4E-8
Pfam IPR001304 EMBL-EBI C-type lectin 1.3E-6
Pfam IPR000859 EMBL-EBI CUB 1.6E-21
Pfam IPR001304 EMBL-EBI C-type lectin 3.4E-8
Pfam IPR001304 EMBL-EBI C-type lectin 1.3E-6
Pfam IPR000859 EMBL-EBI CUB 1.6E-21
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000017468 1 34-56
Sequence
Target Sequence 
>C. ELEGANS:185425_AT
gatctcctactcggaggcatgtggccagctgacgacgtatacaattgggtggatggttca
ctgtgggagtacgaaaatttcgatccaataaacgtcagagattcagtttgcgtcataatg
tcaaatggtgactcgagacctatcgcccttggaatgtggtacagtggagaatgcaaaaac
gagtatagtgtcgtctgcaagagacctgccggaatccaatgtcctccaaacccaaccatc
gtccccgtgacaccaatgccagcagtccaatcgttctgcaattctagcgttatggctcca
agtgaaatcacatcaccccacttcccatataactactataactctgacttctgcagctat
caaatatccacactaggatcttacaatgtgctcctcagattttcaacatttgacactgaa
aaggtcaacgatgttgtgacggtttacgatggagattccacgaatgatcctgtgatcgga
gtctatgctggatctttctacccgttcacagtgatat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATCTCCTACTCGGAGGCATGTGGC 451 419 775 Antisense
CATGTGGCCAGCTGACGACGTATAC 519 207 792 Antisense
AAATGGTGACTCGAGACCTATCGCC 502 119 897 Antisense
GACCTATCGCCCTTGGAATGTGGTA 504 383 911 Antisense
AGAGACCTGCCGGAATCCAATGTCC 457 69 974 Antisense
TGACACCAATGCCAGCAGTCCAATC 22 573 1022 Antisense
AGTCCAATCGTTCTGCAATTCTAGC 653 59 1038 Antisense
TAACTCTGACTTCTGCAGCTATCAA 500 637 1113 Antisense
ACAATGTGCTCCTCAGATTTTCAAC 40 115 1157 Antisense
GGAGTCTATGCTGGATCTTTCTACC 281 517 1252 Antisense
TCTTTCTACCCGTTCACAGTGATAT 623 615 1267 Antisense
Sequence Source Affymetrix Proprietary Database