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[173840_s_at] Lectin C-type domain short and long forms (2 domains), CUB domain /// C-type lectin

Description AU110123 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=T07D10.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AU110123 /WB_GENE_ID=T07D10.4 /WP=CE13381 /CHR=1 /FEA=Genomic Cluster /DEF=C-type lectin; Caenorhabditis elegans cDNA clone:yk716b10 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 25      6grp_high1_10_10 > 51      4grp_high_8_8 > 50      6grp_highest_nonorm > 25      6grp_total > 40      4grp_total > 53      6grp_highest_sub > 03      6grp_cgc > 83      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3233
1 2 3 4 range
A 3266.4
(3)
P 		2002
(0.6)
P 		1791.5
(0.2)
P 		140.3
(-3)
P 		3126
B 3227
(3)
P 		1947.3
(0.6)
P 		1617.3
(-0)
P 		34.3
(-3)
A 		3193
C 3267.2
(3)
P 		1874.1
(0.4)
P 		1717.9
(0.1)
P 		83.3
(-3)
P 		3184
avr 3253.5
(3) 		1941.1
(0.5) 		1708.9
(0.1) 		86
(-3) 		3168

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5619
1 2 3 4 5 6 range
A 3369.3
(-0.9)
P 		4942.4
(0.8)
P 		7017.5
(3)
P 		5438.4
(1.3)
P 		2559
(-1.8)
P 		1398.7
(-3)
P 		5619
B 3230.1
(-1)
P 		4933.8
(1.3)
P 		6219.9
(3)
P 		4653.6
(0.9)
P 		2960.5
(-1.4)
P 		1764.4
(-3)
P 		4456
C 2839.9
(-1.4)
P 		4988.2
(1.6)
P 		5931.8
(3)
P 		5878.1
(2.9)
P 		2464
(-2)
P 		1759
(-3)
P 		4173
avr 3146.4
(-1.1) 		4954.8
(1.2) 		6389.7
(3) 		5323.4
(1.7) 		2661.2
(-1.7) 		1640.7
(-3) 		4749
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1182
1 2 3 4 range
A 1189.3
(3)
P 		434.6
(-0.9)
P 		468.3
(-0.7)
P 		20.5
(-3)
P 		1169
B 1029.1
(3)
P 		480.9
(-0.2)
P 		374.8
(-0.8)
P 		7.3
(-3)
A 		1022
C 1081.5
(3)
P 		538.8
(-0.1)
P 		598.7
(0.3)
P 		14
(-3)
P 		1068
avr 1100
(3) 		484.8
(-0.4) 		480.6
(-0.4) 		13.9
(-3) 		1086

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1417
1 2 3 4 5 6 range
A 621.1
(-1.8)
P 		1757.7
(3)
P 		1528.3
(2)
P 		1379.3
(1.4)
P 		772.2
(-1.2)
P 		340.5
(-3)
P 		1417
B 1123.9
(-0.2)
P 		1642.3
(3)
P 		1510.4
(2.2)
P 		1232.6
(0.5)
P 		1202.8
(0.3)
P 		657.9
(-3)
P 		984
C 1052.6
(-0)
P 		1522
(3)
P 		1509.7
(2.9)
P 		1182.1
(0.8)
P 		797.3
(-1.7)
P 		588.8
(-3)
P 		933
avr 932.5
(-0.8) 		1640.7
(3) 		1516.1
(2.3) 		1264.7
(1) 		924.1
(-0.9) 		529.1
(-3) 		1112
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173840_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22591
Sequence Type Exemplar sequence
Representative Public ID AU110123 NCBI
Target Description AU110123 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=T07D10.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AU110123 /WB_GENE_ID=T07D10.4 /WP=CE13381 /CHR=1 /FEA=Genomic Cluster /DEF=C-type lectin; Caenorhabditis elegans cDNA clone:yk716b10 : 5prime 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_060795(11), NM_060796(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060795 NCBI Caenorhabditis elegans C-type LECtin family member (clec-15) (clec-15) mRNA, complete cds. 11/11 None
NM_060796 NCBI Caenorhabditis elegans C-type LECtin family member (clec-13) (clec-13) mRNA, complete cds. 11/11 None
GENEFINDER00000024108 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:12637314:12640557:-1 10/11 None
SNAP00000024094 ENSEMBL cdna:SNAP chromosome:CEL140:I:12639306:12640676:-1 11/11 None
SNAP00000037459 ENSEMBL cdna:SNAP chromosome:CEL140:I:12643293:12644663:1 11/11 None
GENEFINDER00000037464 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:12643293:12646655:1 10/11 None
T07D10.4 ENSEMBL cdna:known chromosome:CEL140:I:12639306:12640676:-1 gene:T07D10.4 11/11 None
H16D19.1 ENSEMBL cdna:known chromosome:CEL140:I:12643293:12644663:1 gene:H16D19.1 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
chrI:12643222-12644611(+) 100.0 100.0
chrI:12639219-12640608(-) 100.0 100.0
Public Domain and Genome References
Gene Title Lectin C-type domain short and long forms (2 domains), CUB domain
C-type lectin
Gene Symbol clec-13
clec-15
Ensembl T07D10.4
H16D19.1
Entrez Gene 173131 Entrez gene
173132 Entrez gene
SwissProt O02301 EMBL-EBI
WormBase CE13381 Wormbase
CE13381 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 CAA20940 Hypothetical protein H16D19.1 [Caenorhabditis elegans] emb|CAB04713.1| Hypothetical protein T07D10.4 [Caenorhabditis elegans] ref|NP_493197.1| C-type LECtin family member (clec-13) [Caenorhabditis elegans] ref|NP_493196.1| C-type LECtin family member (clec-15) [Caenorhabditis elegans] 0.0
blast T23099 hypothetical protein H16D19.2 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001304 EMBL-EBI C-type lectin 1.5E-6
Pfam IPR001304 EMBL-EBI C-type lectin 1.1E-7
Pfam IPR001304 EMBL-EBI C-type lectin 8.6E-11
Pfam IPR001304 EMBL-EBI C-type lectin 1.9E-9
Pfam IPR000859 EMBL-EBI CUB 8.6E-19
Pfam IPR001304 EMBL-EBI C-type lectin 1.5E-6
Pfam IPR001304 EMBL-EBI C-type lectin 1.1E-7
Pfam IPR000859 EMBL-EBI CUB 1.6E-22
Pfam IPR001304 EMBL-EBI C-type lectin 8.6E-11
Pfam IPR001304 EMBL-EBI C-type lectin 1.9E-9
Pfam IPR000859 EMBL-EBI CUB 8.6E-19
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_493196.1 1 7-29
NP_493197.1 1 7-29
T07D10.4 1 7-29
H16D19.1 1 7-29
SNAP00000024094 1 7-29
SNAP00000037459 1 7-29
GENEFINDER00000037464 1 7-29
Sequence
Target Sequence 
>C. ELEGANS:173840_S_AT
ggtatggcatcatgactccagtctcatctggttagatcgttctgcgtgggactacagtga
catcgatccaatatttcctcgagttgattactgtttgaaaatgtcggcgttcaacggtta
tccgactggaatgtggtacagtaacaactgcgtcgacaataataaatacgtgtgcaaacg
tccagccggtgtgcaatgcccagctgtaccgccaacaactgtggcaccaagttcatcata
ctgcaacgcagggcgactgatgaataatgcagttatcacctctccaaactacccagaaaa
ctacttcaacaatgcaaactgcacttatacactgtccacattgggatcatataagataat
tctagtattttatgatttcagacttgaggctggacgtgattttgtgaccgtttacgatgg
cgaaacgacaagtagtccagttttggcagcacgtctcagtggtactatcaaaggtggatt
ttcatatacatcgactggaaataacatgcttgtaactttcacatcagatgccagtattgt
tggcccaggttttacggcaagg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGTATGGCATCATGACTCCAGTCTC 517 503 667 Antisense
TGGTTAGATCGTTCTGCGTGGGACT 183 551 695 Antisense
AGTGACATCGATCCAATATTTCCTC 112 61 722 Antisense
CGGCGTTCAACGGTTATCCGACTGG 532 229 771 Antisense
GTACCGCCAACAACTGTGGCACCAA 519 457 872 Antisense
GCACCAAGTTCATCATACTGCAACG 289 315 890 Antisense
GCAAACTGCACTTATACACTGTCCA 133 319 980 Antisense
GAGGCTGGACGTGATTTTGTGACCG 622 405 1052 Antisense
GTAGTCCAGTTTTGGCAGCACGTCT 449 455 1098 Antisense
GGCAGCACGTCTCAGTGGTACTATC 686 535 1111 Antisense
TGTTGGCCCAGGTTTTACGGCAAGG 305 549 1204 Antisense
Sequence Source Affymetrix Proprietary Database