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[193797_at] Lectin C-type domain short and long forms, CUB domain

Description F16H6.1 /REP_DB=WormBase Gene ID /WP=CE18597 /TR=Q9XV91 /GB=CAB04128.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Lectin C-type domain short and long forms, CUB domain
Cluster 6grp_highest_10_10 > 33      6grp_high1_10_10 > 22      4grp_highest_8_8 > 41      4grp_high_8_8 > 42      6grp_highest_nonorm > 22      6grp_total > 22      4grp_total > 53      6grp_highest_sub > 02      6grp_cgc > 61      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Hat      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2173
1 2 3 4 range
A 2264.6
(3)
P 		1568.2
(1.1)
P 		1210
(0.1)
P 		109.5
(-3)
P 		2155
B 2158.1
(3)
P 		1294.3
(0.5)
P 		1092.2
(-0.1)
P 		91.6
(-3)
P 		2067
C 1991.2
(3)
P 		1309.4
(0.8)
P 		1069.7
(0)
P 		127.3
(-3)
P 		1864
avr 2138
(3) 		1390.6
(0.8) 		1124
(0) 		109.5
(-3) 		2029

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2339
1 2 3 4 5 6 range
A 2244.2
(2.4)
P 		2465.4
(3)
P 		2026.9
(1.7)
P 		1768.4
(1)
P 		771.2
(-1.9)
P 		375.7
(-3)
P 		2090
B 1792.3
(0.9)
P 		2573.4
(3)
P 		2052.4
(1.6)
P 		1457.4
(-0)
P 		711
(-2.1)
P 		361.8
(-3)
P 		2212
C 2321.1
(2)
P 		2503.7
(2.5)
P 		2693.3
(3)
P 		1709.3
(0.5)
P 		810.6
(-1.8)
P 		354
(-3)
P 		2339
avr 2119.2
(1.9) 		2514.2
(3) 		2257.5
(2.3) 		1645
(0.6) 		764.3
(-1.9) 		363.8
(-3) 		2150
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 809
1 2 3 4 range
A 824.5
(3)
P 		340.4
(-0.6)
P 		316.3
(-0.8)
P 		16
(-3)
P 		809
B 688.2
(3)
P 		319.7
(-0.3)
P 		253.1
(-0.9)
P 		19.5
(-3)
P 		669
C 659.1
(3)
P 		376.5
(0.3)
P 		372.8
(0.3)
P 		21.5
(-3)
P 		638
avr 723.9
(3) 		345.5
(-0.2) 		314.1
(-0.5) 		19
(-3) 		705

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 785
1 2 3 4 5 6 range
A 413.7
(-0.5)
P 		876.8
(3)
P 		441.4
(-0.3)
P 		448.5
(-0.3)
P 		232.7
(-1.9)
P 		91.5
(-3)
P 		785
B 623.6
(1.1)
P 		856.6
(3)
P 		498.4
(0)
P 		386
(-0.9)
P 		288.9
(-1.7)
P 		134.9
(-3)
P 		722
C 860.3
(3)
P 		763.9
(2.2)
P 		685.5
(1.6)
P 		343.7
(-1.2)
P 		262.3
(-1.8)
P 		118.5
(-3)
P 		742
avr 632.5
(1.3) 		832.4
(3) 		541.8
(0.6) 		392.7
(-0.7) 		261.3
(-1.8) 		115
(-3) 		717
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193797_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13099
Sequence Type Exemplar sequence
Representative Public ID F16H6.1 NCBI
Target Description F16H6.1 /REP_DB=WormBase Gene ID /WP=CE18597 /TR=Q9XV91 /GB=CAB04128.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Lectin C-type domain short and long forms, CUB 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_075156(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075156 NCBI Caenorhabditis elegans C-type LECtin family member (clec-42) (clec-42) mRNA, complete cds. 11/11 None
SNAP00000001296 ENSEMBL cdna:SNAP chromosome:CEL140:V:18194050:18205979:1 11/11 None
F16H6.1 ENSEMBL cdna:known chromosome:CEL140:V:18194017:18196741:1 gene:F16H6.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000001303 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:18194016-18196693(+) 100.0 100.0
Public Domain and Genome References
Gene Title Lectin C-type domain short and long forms, CUB domain
Gene Symbol clec-42
Ensembl F16H6.1
Entrez Gene 180189 Entrez gene
SwissProt Q9XV91 EMBL-EBI
WormBase CE18597 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 CAB04128 Hypothetical protein F16H6.1 [Caenorhabditis elegans] ref|NP_507557.1| C-type LECtin family member (clec-42) [Caenorhabditis elegans] 0.0
blast CAB02691 Hypothetical protein B0365.6 [Caenorhabditis elegans] ref|NP_506271.1| C-type LECtin family member (clec-41) [Caenorhabditis elegans] 0.0
blast CAE64660 Hypothetical protein CBG09432 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001304 EMBL-EBI C-type lectin 3.9E-15
Pfam IPR000859 EMBL-EBI CUB 3.2E-9
Pfam IPR000859 EMBL-EBI CUB 2.7E-15
Pfam IPR001304 EMBL-EBI C-type lectin 3.9E-15
Pfam IPR003582 EMBL-EBI Metridin-like ShK toxin 9.3
Pfam IPR003582 EMBL-EBI Metridin-like ShK toxin 3.8E-11
Pfam IPR003582 EMBL-EBI Metridin-like ShK toxin 6.6E-13
Pfam IPR003582 EMBL-EBI Metridin-like ShK toxin 2.2E-8
Pfam IPR000859 EMBL-EBI CUB 3.2E-9
Pfam IPR000859 EMBL-EBI CUB 1.9E-9
Pfam IPR010381 EMBL-EBI Caenorhabditis elegans protein of unknown function DUF976 1.5E-107
Pfam IPR010381 EMBL-EBI Caenorhabditis elegans protein of unknown function DUF976 8.4E-102
Sequence
Target Sequence 
>C. ELEGANS:193797_AT
gtccaaatccaattcccaattctgaatctggattcccaggcgtcaatttctctttacaat
catgtagaggactccacaccttttctggtacttgaagcgaattctgcaagcgatcagtgg
tacacatcgacaacaaatacgatgagagtagtgttccaactttgcatctcacattgttta
aatgatggtgccaactataattggaaagctgaattcaagccatccacagctgttacaacc
cagccaccaattacagtaaccccaaacccgaataacccgtcagggtgtaattcaaatata
atggctccaggatatatatcaagcccgaattatccaaactactatccaagcaatgcgttg
tgtaggtaccatctttctacaactgttggaaaccgaattaaacttgattttggagcaatt
gacactgatcaatgctgtgattatatttacgtgcaagatggggcatttaccggaagtccg
tttattgcaaatatcagtggtacatatccagcgcacatgaaaacctttcagtcgacctct
aacttaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCCAAATCCAATTCCCAATTCTGA 156 477 1051 Antisense
CAGGCGTCAATTTCTCTTTACAATC 78 209 1087 Antisense
CTCCACACCTTTTCTGGTACTTGAA 214 235 1122 Antisense
TAGTGTTCCAACTTTGCATCTCACA 97 655 1199 Antisense
GAATTCAAGCCATCCACAGCTGTTA 221 325 1261 Antisense
TCCACAGCTGTTACAACCCAGCCAC 621 585 1273 Antisense
ATCAAGCCCGAATTATCCAAACTAC 299 27 1368 Antisense
AGGTACCATCTTTCTACAACTGTTG 395 55 1414 Antisense
GATGGGGCATTTACCGGAAGTCCGT 64 407 1507 Antisense
GTGGTACATATCCAGCGCACATGAA 385 487 1547 Antisense
CCTTTCAGTCGACCTCTAACTTAAT 10 267 1574 Antisense
Sequence Source Affymetrix Proprietary Database