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[193311_at] Leucine Rich Repeat (2 copies) (6 domains)

Description C44H4.1 /REP_DB=WormBase Gene ID /WP=CE08722 /TR=Q93377 /GB=CAB01867.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Leucine Rich Repeat (2 copies) (6 domains)
Cluster 6grp_total > 81      4grp_total > 42      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 76
1 2 3 4 range
A 5.8
(-3)
A 		80.5
(3)
A 		9.6
(-2.7)
A 		55.8
(1)
A 		75
B 4.2
(-3)
A 		11.8
(-1.5)
A 		35
(3)
A 		4.5
(-2.9)
A 		31
C 6.3
(-2.8)
A 		18.6
(3)
A 		13.5
(0.6)
A 		5.8
(-3)
A 		13
avr 5.4
(-3) 		37
(3) 		19.4
(-0.3) 		22
(0.2) 		32

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 131
1 2 3 4 5 6 range
A 23.5
(-1.5)
A 		10.4
(-2.8)
A 		49.2
(1)
A 		62.2
(2.3)
A 		69.3
(3)
A 		8.1
(-3)
A 		61
B 42.4
(-0.1)
A 		76.5
(3)
A 		35.4
(-0.8)
A 		53.6
(0.9)
A 		49.3
(0.5)
A 		11
(-3)
A 		66
C 7.9
(-3)
A 		52.2
(-1)
A 		34.5
(-1.8)
A 		139.3
(3)
A 		34.2
(-1.8)
A 		11.8
(-2.8)
A 		131
avr 24.6
(-1.9) 		46.4
(-0.1) 		39.7
(-0.6) 		85
(3) 		50.9
(0.3) 		10.3
(-3) 		75
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 2.1
(-3)
A 		17.5
(3)
A 		2.5
(-2.8)
A 		8.2
(-0.6)
A 		15
B 1.3
(-2.7)
A 		2.9
(-1.4)
A 		8.1
(3)
A 		1
(-3)
A 		7
C 2.1
(-1.5)
A 		5.4
(3)
A 		4.7
(2)
A 		1
(-3)
A 		4
avr 1.8
(-3) 		8.6
(3) 		5.1
(-0.1) 		3.4
(-1.6) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 26
1 2 3 4 5 6 range
A 4.3
(-2.3)
A 		3.7
(-2.5)
A 		10.7
(-0.2)
A 		15.8
(1.4)
A 		20.9
(3)
A 		2
(-3)
A 		19
B 14.8
(0)
A 		25.5
(3)
A 		8.6
(-1.7)
A 		14.2
(-0.2)
A 		20
(1.5)
A 		4.1
(-3)
A 		21
C 2.9
(-3)
A 		15.9
(0.1)
A 		8.8
(-1.6)
A 		28
(3)
A 		11.1
(-1)
A 		4
(-2.7)
A 		25
avr 7.3
(-1.5) 		15
(1.4) 		9.4
(-0.7) 		19.3
(3) 		17.3
(2.2) 		3.4
(-3) 		16
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193311_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17420
Sequence Type Exemplar sequence
Representative Public ID C44H4.1 NCBI
Target Description C44H4.1 /REP_DB=WormBase Gene ID /WP=CE08722 /TR=Q93377 /GB=CAB01867.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Leucine Rich Repeat (2 copies) (6 domains)
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_078023(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078023 NCBI Caenorhabditis elegans C44H4.1 (C44H4.1) mRNA, complete cds. 11/11 None
SNAP00000043714 ENSEMBL cdna:SNAP chromosome:CEL140:X:14572647:14575874:1 10/11 None
GENEFINDER00000043722 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:14572647:14575874:1 11/11 None
C44H4.1 ENSEMBL cdna:known chromosome:CEL140:X:14572638:14576027:1 gene:C44H4.1 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
chrX:14572646-14575009(+) 100.0 100.0
Public Domain and Genome References
Gene Title Leucine Rich Repeat (2 copies) (6 domains)
Ensembl C44H4.1
Entrez Gene 181553 Entrez gene
SwissProt Q93377 EMBL-EBI
WormBase CE35433 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.29070.1.S1_AT similar to slit and trk like 4 protein cfa
CHICKEN:GGA.4088.1.S1_AT similar to neuronal transmembrane protein Slitrk4 gga
CHICKEN:GGAAFFX.22181.1.S1_AT similar to neuronal transmembrane protein Slitrk4 gga
HG-U133_PLUS_2:232636_AT SLIT and NTRK-like family, member 4 hs
HG-U133B:232636_AT SLIT and NTRK-like family, member 4 hs
U133_X3P:HS.272284.0.S1_3P_AT SLIT and NTRK-like family, member 4 hs
MOE430B:1437744_AT SLIT and NTRK-like family, member 4 mm
MOUSE430_2:1437744_AT SLIT and NTRK-like family, member 4 mm
MG-U74CV2:129574_AT SLIT and NTRK-like family, member 4 (Slitrk4), mRNA mm
MOE430B:1434878_AT SLIT and NTRK-like family, member 4 (Slitrk4), mRNA mm
MOUSE430_2:1434878_AT SLIT and NTRK-like family, member 4 (Slitrk4), mRNA mm
Protein Similarities
Method ID Description E-Value
blast CAB01867 Hypothetical protein C44H4.1 [Caenorhabditis elegans] ref|NP_510424.3| C44H4.1 [Caenorhabditis elegans] 0.0
blast CAE63199 Hypothetical protein CBG07554 [Caenorhabditis briggsae] 0.0
blast AAA82419 Hypothetical protein ZK682.5 [Caenorhabditis elegans] ref|NP_505402.1| ZK682.5 [Caenorhabditis elegans] 3.0E-51
Protein Domains
Database ID Description E-Value
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.39
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.19
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.02
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.028
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.13
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.39
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.5
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.17
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.058
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.058
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510424.3 1 502-524
C44H4.1 1 502-524
SNAP00000043714 1 447-469
GENEFINDER00000043722 1 502-524
Sequence
Target Sequence 
>C. ELEGANS:193311_AT
aagtcaatcagattcgcctcattccgtctgacagtttctcggagactccgctactttcct
atctctacctaggaaacaatctgctaacctctatcgatgcttccatgttcctccatattg
gagggctgaaggttctttcaatgagcaacaacaaagatatcacaagtatccaagctaatg
gaaagttatcagtacaacaatttaagttatgtatttgtattttagctttccaacacgcgc
caagtttaattcgtttggaactttttgattgttccattagcaggattgagccgaagagtt
tgcaaaaggttcaacacattcaagtaattttgctttccagaaatcaaattacccagatta
acgcagttgatgattttgcgttcagtcagcttcctatgctaacttctcttgatttgagta
gtaatcgattagaatcattaccgagcaatgttatatacgactcattgatgcaaaagaaaa
cgtcaccagttcaaagaaaactttcaattcagaataacccatggcgctgtgacaaagatc
taatgtggctacgtaaatggctccgagataatggtgacgtcac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGTCAATCAGATTCGCCTCATTCC 657 157 773 Antisense
CTCATTCCGTCTGACAGTTTCTCGG 606 229 790 Antisense
GTTTCTCGGAGACTCCGCTACTTTC 183 451 806 Antisense
GAAACAATCTGCTAACCTCTATCGA 296 355 845 Antisense
GCTTCCATGTTCCTCCATATTGGAG 238 307 871 Antisense
TGTATTTTAGCTTTCCAACACGCGC 369 559 988 Antisense
GATGATTTTGCGTTCAGTCAGCTTC 310 411 1141 Antisense
AGTCAGCTTCCTATGCTAACTTCTC 29 63 1156 Antisense
GAATAACCCATGGCGCTGTGACAAA 553 325 1284 Antisense
ATGTGGCTACGTAAATGGCTCCGAG 178 51 1315 Antisense
GGCTCCGAGATAATGGTGACGTCAC 205 539 1331 Antisense
Sequence Source Affymetrix Proprietary Database