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[189922_at] C-type lectin domain

Description F08H9.6 /REP_DB=WormBase Gene ID /WP=CE09270 /TR=Q19229 /GB=CAB01148.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=C-type lectin domain
Cluster 6grp_highest_10_10 > 05      6grp_high1_10_10 > 50      4grp_high_8_8 > 53      6grp_highest_nonorm > 71      6grp_total > 51      4grp_total > 59      6grp_highest_sub > 03_04      6grp_cgc > 83      6grp_high1_sub > 03_04      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 597
1 2 3 4 range
A 365.1
(0.3)
P 		588.4
(3)
P 		568.6
(2.8)
P 		91.1
(-3)
P 		497
B 292.7
(-0.9)
P 		632.3
(3)
P 		495.3
(1.4)
P 		103.1
(-3)
P 		529
C 421.7
(0.6)
P 		665
(3)
P 		560.5
(2)
P 		67.7
(-3)
A 		597
avr 359.8
(0) 		628.6
(3) 		541.5
(2) 		87.3
(-3) 		541

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 317
1 2 3 4 5 6 range
A 358.1
(0.3)
P 		363.7
(0.5)
P 		398.3
(1.3)
P 		470.3
(3)
P 		288.2
(-1.3)
P 		217.3
(-3)
P 		253
B 337.6
(0.7)
P 		337.4
(0.7)
P 		455.8
(3)
P 		404.6
(2)
P 		284.7
(-0.4)
P 		153.4
(-3)
P 		302
C 325.4
(0.3)
P 		355.6
(1.1)
P 		423.7
(3)
P 		373.5
(1.6)
P 		256
(-1.6)
P 		206
(-3)
P 		218
avr 340.4
(0.8) 		352.2
(1.1) 		425.9
(3) 		416.1
(2.7) 		276.3
(-0.8) 		192.2
(-3) 		234
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 184
1 2 3 4 range
A 132.9
(2.3)
P 		127.7
(2.1)
P 		148.6
(3)
P 		13.3
(-3)
P 		135
B 93.3
(0.2)
P 		156.2
(3)
P 		114.8
(1.1)
P 		22
(-3)
P 		134
C 139.6
(1.2)
P 		191.2
(2.9)
P 		195.3
(3)
P 		11.4
(-3)
A 		184
avr 121.9
(1.5) 		158.4
(3) 		152.9
(2.8) 		15.6
(-3) 		143

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 77
1 2 3 4 5 6 range
A 66
(-2)
P 		129.4
(3)
P 		86.7
(-0.3)
P 		119.3
(2.2)
P 		87
(-0.3)
P 		52.9
(-3)
P 		77
B 117.5
(3)
P 		112.3
(2.5)
P 		110.7
(2.3)
P 		107.2
(2)
P 		115.7
(2.8)
P 		57.2
(-3)
P 		60
C 120.6
(3)
P 		108.5
(1.6)
P 		107.8
(1.5)
P 		75.1
(-2.3)
P 		82.8
(-1.4)
P 		68.9
(-3)
P 		52
avr 101.4
(1.4) 		116.7
(3) 		101.7
(1.4) 		100.5
(1.3) 		95.2
(0.7) 		59.7
(-3) 		57
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189922_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13559
Sequence Type Exemplar sequence
Representative Public ID F08H9.6 NCBI
Target Description F08H9.6 /REP_DB=WormBase Gene ID /WP=CE09270 /TR=Q19229 /GB=CAB01148.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=C-type lectin domain
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_074186
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
SNAP00000029730 ENSEMBL cdna:SNAP chromosome:CEL140:V:14471830:14473604:1 None
NM_074186 NCBI Caenorhabditis elegans C-type LECtin family member (clec-57) (clec-57) mRNA, complete cds. A 
F08H9.6.2 ENSEMBL cdna:known chromosome:CEL140:V:14471525:14474894:1 gene:F08H9.6 A 
F08H9.6.1 ENSEMBL cdna:known chromosome:CEL140:V:14471812:14475023:1 gene:F08H9.6 A 
SNAP00000009112 ENSEMBL cdna:SNAP chromosome:CEL140:V:14034380:14035170:1 None
GENEFINDER00000029741 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:14470834:14474894:1 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000009111 2/11 Cross Hyb Matching Probes None
GENEFINDER00000009132 2/11 Cross Hyb Matching Probes None
T08G5.4 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:14471829-14473604(+) 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 CAB01148 Hypothetical protein F08H9.6 [Caenorhabditis elegans] ref|NP_506587.2| C-type LECtin family member (clec-57) [Caenorhabditis elegans] 1.0E-164
blast CAE60889 Hypothetical protein CBG04604 [Caenorhabditis briggsae] 1.0E-163
blast CAE60889 Hypothetical protein CBG04604 [Caenorhabditis briggsae] 1.0E-128
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 IPR000859 EMBL-EBI CUB 5.1E-14
Pfam IPR000859 EMBL-EBI CUB 4.9E-5
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:189922_AT
aagtcacacagtgctaccaattccagccagcgttttgcaaacagactcctgcactaacat
ttcagccccgaacaatacgttcatcacaattctattctccccatttttggttgaagaatg
gtatgatctcgtggatgtttttgatggtaactcgacaaattatgttgaccatattggaca
gtaagctgagctatgtaaccatccatcattcaataaatattttcagagtatcttcataca
atttggctcggggatttgaatcgtctacaaacatgatgactgttcgattcaagacaaatt
acgatattaccgataaaggatggttggccacgtggaaagcaaagaaggatatgccagtta
taagtcaaagtggatcaaatgggacaatggtttcacccaactatccattaacctatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGTCACACAGTGCTACCAATTCCA 287 157 401 Antisense
AATTCCAGCCAGCGTTTTGCAAACA 149 179 419 Antisense
AACAGACTCCTGCACTAACATTTCA 185 137 440 Antisense
AACATTTCAGCCCCGAACAATACGT 597 137 456 Antisense
TACGTTCATCACAATTCTATTCTCC 241 649 476 Antisense
TTCTATTCTCCCCATTTTTGGTTGA 492 689 490 Antisense
GAGCTATGTAACCATCCATCATTCA 217 389 588 Antisense
GTATCTTCATACAATTTGGCTCGGG 297 455 628 Antisense
GGCTCGGGGATTTGAATCGTCTACA 100 539 645 Antisense
GGACAATGGTTTCACCCAACTATCC 271 527 782 Antisense
TCACCCAACTATCCATTAACCTATG 270 625 793 Antisense
Sequence Source Affymetrix Proprietary Database