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[175235_at] C-type lectin domain

Description AU113332_rc /REP_DB=TREMBL Accession /GB=AU113332 /CHR=5 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk706b1 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 06      6grp_high1_10_10 > 50      6grp_highest_nonorm > 52      6grp_total > 50      4grp_total > 59      6grp_highest_sub > 04      6grp_cgc > 83      6grp_high1_sub > 03_04      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S4      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1057
1 2 3 4 range
A 645.1
(1.1)
P 		932.3
(3)
P 		831.3
(2.3)
P 		7.4
(-3)
A 		925
B 596.4
(0.3)
P 		1063.7
(3)
P 		838.9
(1.7)
P 		6.6
(-3)
A 		1057
C 594.2
(0.6)
P 		989.5
(3)
P 		947.9
(2.7)
P 		14.2
(-3)
A 		975
avr 611.9
(0.7) 		995.2
(3) 		872.7
(2.3) 		9.4
(-3) 		986

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 806
1 2 3 4 5 6 range
A 471.6
(-0.9)
P 		489.6
(-0.7)
P 		992.4
(3)
P 		885.6
(2.2)
P 		335.1
(-1.9)
P 		186.8
(-3)
P 		806
B 509.4
(0.2)
P 		606.7
(1.2)
P 		619
(1.3)
P 		780
(3)
P 		500.4
(0.1)
P 		209.7
(-3)
P 		570
C 559.9
(-0.2)
P 		611.6
(0.4)
P 		693.1
(1.2)
P 		857.9
(3)
P 		439.5
(-1.4)
P 		293.4
(-3)
P 		565
avr 513.6
(-0.2) 		569.3
(0.3) 		768.2
(2.3) 		841.2
(3) 		425
(-1.1) 		230
(-3) 		611
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 329
1 2 3 4 range
A 234.9
(3)
P 		202.4
(2.2)
P 		217.3
(2.5)
P 		1.1
(-3)
A 		234
B 190.2
(1.3)
P 		262.7
(3)
P 		194.4
(1.4)
P 		1.4
(-3)
A 		261
C 196.7
(0.6)
P 		284.5
(2.2)
P 		330.4
(3)
P 		2.4
(-3)
A 		328
avr 207.3
(2) 		249.9
(3) 		247.4
(2.9) 		1.6
(-3) 		248

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 179
1 2 3 4 5 6 range
A 86.9
(-1.6)
P 		174.1
(1.3)
P 		216.1
(2.7)
P 		224.6
(3)
P 		101.1
(-1.1)
P 		45.5
(-3)
P 		179
B 177.2
(1.6)
P 		201.9
(2.8)
P 		150.3
(0.4)
P 		206.6
(3)
P 		203.3
(2.8)
P 		78.2
(-3)
P 		128
C 207.5
(3)
P 		186.6
(1.9)
P 		176.4
(1.3)
P 		172.5
(1.1)
P 		142.2
(-0.6)
P 		98.2
(-3)
P 		109
avr 157.2
(0.9) 		187.5
(2.4) 		180.9
(2) 		201.2
(3) 		148.9
(0.5) 		74
(-3) 		127
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175235_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21947
Sequence Type Exemplar sequence
Representative Public ID AU113332 NCBI
Target Description AU113332_rc /REP_DB=TREMBL Accession /GB=AU113332 /CHR=5 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk706b1 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_074186(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074186 NCBI Caenorhabditis elegans C-type LECtin family member (clec-57) (clec-57) mRNA, complete cds. 10/11 None
SNAP00000029732 ENSEMBL cdna:SNAP chromosome:CEL140:V:14474157:14474894:1 9/11 None
GENEFINDER00000029741 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:14470834:14474894:1 10/11 None
F08H9.6.2 ENSEMBL cdna:known chromosome:CEL140:V:14471525:14474894:1 gene:F08H9.6 10/11 None
F08H9.6.1 ENSEMBL cdna:known chromosome:CEL140:V:14471812:14475023:1 gene:F08H9.6 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000009112 4/11 Cross Hyb Matching Probes None
T08G5.4 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:14473504-14474967(+) 100.0 100.0
Public Domain and Genome References
Gene Title C-type lectin domain
Gene Symbol clec-57
Ensembl F08H9.6
Entrez Gene 179951 Entrez gene
SwissProt Q19229 EMBL-EBI
WormBase CE31901 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 CAB01148 Hypothetical protein F08H9.6 [Caenorhabditis elegans] ref|NP_506587.2| C-type LECtin family member (clec-57) [Caenorhabditis elegans] 0.0
blast CAE60889 Hypothetical protein CBG04604 [Caenorhabditis briggsae] 1.0E-163
blast CAB01151 Hypothetical protein F08H9.7 [Caenorhabditis elegans] ref|NP_506589.2| C-type LECtin family member (clec-56) [Caenorhabditis elegans] 9.0E-91
Protein Domains
Database ID Description E-Value
Pfam IPR001304 EMBL-EBI C-type lectin 4.8E-5
Pfam IPR000859 EMBL-EBI CUB 5.1E-14
Pfam IPR000859 EMBL-EBI CUB 2.4E-11
Pfam IPR001304 EMBL-EBI C-type lectin 4.8E-5
Pfam IPR000859 EMBL-EBI CUB 5.1E-14
Pfam IPR000859 EMBL-EBI CUB 2.4E-11
Sequence
Target Sequence 
>C. ELEGANS:175235_AT
actcttgtaacaacattatccggacaatccgtagctccattcaactacatttctccaaga
agctacatgtcaatgaaatttgtatctgatggatcacttcaatacaccggatggcacgca
ttttggagcatttgctaattgaaattatttagaaccaaattcaatcttccaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACTCTTGTAACAACATTATCCGGAC 188 101 95 Antisense
TTATCCGGACAATCCGTAGCTCCAT 636 613 110 Antisense
ACAATCCGTAGCTCCATTCAACTAC 513 113 118 Antisense
TAGCTCCATTCAACTACATTTCTCC 506 651 126 Antisense
TCCATTCAACTACATTTCTCCAAGA 616 591 130 Antisense
TTCTCCAAGAAGCTACATGTCAATG 57 693 145 Antisense
GTCAATGAAATTTGTATCTGATGGA 199 463 163 Antisense
GATGGATCACTTCAATACACCGGAT 500 407 182 Antisense
AATACACCGGATGGCACGCATTTTG 52 173 195 Antisense
CGGATGGCACGCATTTTGGAGCATT 683 243 202 Antisense
TTAGAACCAAATTCAATCTTCCAAC 162 681 243 Antisense
Sequence Source Affymetrix Proprietary Database