[Home] | [Total List]

[189705_s_at]

Description M88.6A /REP_DB=WormBase Gene ID /WP=CE01041 /TR=Q21604 /GB=CAA84337.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Leucine-rich repeats
Cluster 6grp_highest_10_10 > 01      6grp_high1_10_10 > 10      4grp_highest_8_8 > 08      4grp_high_8_8 > 44      6grp_highest_nonorm > 34      6grp_total > 50      4grp_total > 51      6grp_cgc > 50      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2721
1 2 3 4 range
A 1714.6
(0.3)
P 		2669.2
(3)
P 		2124.5
(1.5)
P 		557
(-3)
P 		2112
B 2087.3
(0.2)
P 		3278.4
(3)
P 		2496.9
(1.2)
P 		710.3
(-3)
P 		2568
C 1691.9
(-0.4)
P 		3126.5
(3)
P 		2281.1
(1)
P 		565.3
(-3)
P 		2561
avr 1831.3
(0) 		3024.7
(3) 		2300.8
(1.2) 		610.9
(-3) 		2414

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2361
1 2 3 4 5 6 range
A 2919.9
(2.9)
P 		2331.6
(1.2)
P 		2360.5
(1.3)
P 		2970.8
(3)
P 		2344.4
(1.2)
P 		877.5
(-3)
P 		2093
B 2965.4
(2.4)
P 		2319.3
(0.7)
P 		2258.7
(0.5)
P 		3214.3
(3)
P 		1821.4
(-0.6)
P 		899.8
(-3)
P 		2315
C 2934.4
(2.2)
P 		2045.1
(-0.2)
P 		3010.1
(2.4)
P 		3238.2
(3)
P 		1839.5
(-0.7)
P 		979
(-3)
P 		2259
avr 2939.9
(2.5) 		2232
(0.5) 		2543.1
(1.4) 		3141.1
(3) 		2001.8
(-0.1) 		918.8
(-3) 		2222
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 817
1 2 3 4 range
A 624.3
(3)
P 		579.4
(2.5)
P 		555.4
(2.2)
P 		81.5
(-3)
P 		543
B 665.6
(1.7)
P 		809.7
(3)
P 		578.6
(0.9)
P 		151.4
(-3)
P 		658
C 560.1
(0.5)
P 		898.9
(3)
P 		795
(2.2)
P 		95.3
(-3)
P 		804
avr 616.7
(1.7) 		762.7
(3) 		643
(1.9) 		109.4
(-3) 		653

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 874
1 2 3 4 5 6 range
A 538.3
(0.2)
P 		829.2
(3)
P 		514.1
(-0.1)
P 		753.5
(2.3)
P 		707.4
(1.8)
P 		213.6
(-3)
P 		616
B 1031.8
(3)
P 		772
(0.8)
P 		548.5
(-1.2)
P 		851.4
(1.4)
P 		740
(0.5)
P 		335.5
(-3)
P 		696
C 1087.7
(3)
P 		624
(-0.7)
P 		766.1
(0.5)
P 		651.2
(-0.4)
P 		595.2
(-0.9)
P 		327.7
(-3)
P 		760
avr 885.9
(3) 		741.7
(1.5) 		609.6
(0.2) 		752
(1.6) 		680.9
(0.9) 		292.3
(-3) 		594
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189705_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6761
Sequence Type Exemplar sequence
Representative Public ID M88.6A NCBI
Target Description M88.6A /REP_DB=WormBase Gene ID /WP=CE01041 /TR=Q21604 /GB=CAA84337.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Leucine-rich repeats
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_065523(11), NM_065524(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065523 NCBI Caenorhabditis elegans P-granule Associated Novel protein family member (pan-1) (pan-1) mRNA, complete cds. 11/11 None
NM_065524 NCBI Caenorhabditis elegans P-granule Associated Novel protein family member (pan-1) (pan-1) mRNA, complete cds. 11/11 None
SNAP00000031343 ENSEMBL cdna:SNAP chromosome:CEL140:III:4562718:4565844:1 11/11 None
GENEFINDER00000031349 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:4562718:4565823:1 11/11 None
M88.6a ENSEMBL cdna:known chromosome:CEL140:III:4562703:4566237:1 gene:M88.6 11/11 A 
M88.6b ENSEMBL cdna:known chromosome:CEL140:III:4562718:4565844:1 gene:M88.6 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
chrIII:4562717-4565844(+) 98.85 100.0
Public Domain and Genome References
Ensembl M88.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA84337 Hypothetical protein M88.6a [Caenorhabditis elegans] ref|NP_497924.1| P-granule Associated Novel protein family member (pan-1) [Caenorhabditis elegans] 0.0
blast CAB54282 Hypothetical protein M88.6b [Caenorhabditis elegans] ref|NP_497925.1| P-granule Associated Novel protein family member (pan-1) [Caenorhabditis elegans] 0.0
blast CAE71185 Hypothetical protein CBG18042 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.42
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0013
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0042
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 8.2E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0041
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.011
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.44
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.019
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.32
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.019
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.32
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_497924.1 1 532-554
NP_497925.1 1 516-538
M88.6a 1 532-554
M88.6b 1 516-538
SNAP00000031343 1 516-538
GENEFINDER00000031349 1 516-538
Sequence
Target Sequence 
>C. ELEGANS:189705_S_AT
gttatccgttctgatgagcttccaaaatctttgtccagtttggcacttgatcataatgtc
atctcaaagatcgaggctcgcgcattggaaggaatggaaatcaagagattgtatttacac
agtaataagcttaactatttgtatcaaggaacatttgactcattctcaccaaaatctgtg
gaggcggttgatgtttcattgaatccatgggtttgcgtgtgcaacgacccgaaagaatgg
cttccacgatggcttgaggcatctgaggaggcagatgttgctgaaggagcactcggatgc
ttggcaatcccaaattgcggacagaaagaaggatccacagtaatgccagaagaggaagaa
gtttatcgatctggatggattactgtagctgccaccattttgacaattgtcacaattgtt
attatggtcattattgctatgctttatttcaaggatgctagataccagttcccacttcgc
ggtcgtcgttctgattctgatcttcataaactgattgagaatgatccattgaacatcgca
tctgactcaattctcgtcgttc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTATCCGTTCTGATGAGCTTCCAA 277 447 1225 Antisense
TCGAGGCTCGCGCATTGGAAGGAAT 77 603 1295 Antisense
GGAACATTTGACTCATTCTCACCAA 535 529 1372 Antisense
GAATCCATGGGTTTGCGTGTGCAAC 204 331 1425 Antisense
ATGGCTTCCACGATGGCTTGAGGCA 387 53 1461 Antisense
GGAGCACTCGGATGCTTGGCAATCC 57 521 1510 Antisense
TTACTGTAGCTGCCACCATTTTGAC 436 683 1604 Antisense
AGGATGCTAGATACCAGTTCCCACT 649 53 1676 Antisense
TCGTCGTTCTGATTCTGATCTTCAT 365 605 1707 Antisense
ATCCATTGAACATCGCATCTGACTC 513 39 1748 Antisense
GCATCTGACTCAATTCTCGTCGTTC 400 309 1762 Antisense
Sequence Source Affymetrix Proprietary Database