[Home] | [Total List]

[190369_at] 2 leucine rich domains

Description F10F2.4 /REP_DB=WormBase Gene ID /WP=CE00949 /TR=Q19312 /GB=CAA84651.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=2 leucine rich domains
Cluster 6grp_highest_10_10 > 33      6grp_high1_10_10 > 23      4grp_highest_8_8 > 53      4grp_high_8_8 > 17      6grp_highest_nonorm > 61      6grp_total > 12      4grp_total > 30      6grp_highest_sub > 02      6grp_high1_sub > 02      6grp_total_sub > Hat      6grp_rule_based > S2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 526
1 2 3 4 range
A 712.6
(3)
P 		288.3
(-1.8)
P 		186.6
(-3)
P 		453.4
(0)
P 		526
B 568.7
(3)
P 		301.7
(-1.7)
P 		224.5
(-3)
P 		539.1
(2.5)
P 		344
C 613.3
(3)
P 		302.9
(-2.3)
P 		261.2
(-3)
P 		486
(0.8)
P 		352
avr 631.5
(3) 		297.6
(-1.9) 		224.1
(-3) 		492.8
(1) 		407

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 310
1 2 3 4 5 6 range
A 411.8
(1.2)
P 		491.6
(3)
P 		411.6
(1.2)
P 		366.1
(0.1)
P 		349.7
(-0.2)
P 		228.1
(-3)
P 		264
B 440
(1)
P 		516.1
(3)
P 		423.3
(0.6)
P 		387.9
(-0.3)
P 		317.8
(-2.2)
P 		285.4
(-3)
P 		231
C 367.2
(-1)
P 		537.9
(3)
P 		473.7
(1.5)
P 		463.5
(1.2)
P 		289.5
(-2.9)
P 		284.1
(-3)
P 		254
avr 406.3
(0.4) 		515.2
(3) 		436.2
(1.1) 		405.8
(0.4) 		319
(-1.7) 		265.9
(-3) 		249
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 211
1 2 3 4 range
A 259.5
(3)
P 		62.6
(-2.6)
P 		48.8
(-3)
P 		66.4
(-2.5)
P 		211
B 181.3
(3)
P 		74.5
(-2)
P 		52
(-3)
P 		114.9
(-0.1)
P 		129
C 203
(3)
P 		87.1
(-2.7)
P 		91
(-2.5)
P 		81.9
(-3)
P 		121
avr 214.6
(3) 		74.7
(-2.6) 		63.9
(-3) 		87.7
(-2.1) 		151

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 119
1 2 3 4 5 6 range
A 75.9
(-2)
P 		174.8
(3)
P 		89.6
(-1.3)
P 		92.8
(-1.1)
P 		105.5
(-0.5)
P 		55.5
(-3)
P 		119
B 153.1
(1.4)
P 		171.8
(3)
P 		102.8
(-3)
P 		102.7
(-3)
P 		129.1
(-0.7)
P 		106.4
(-2.7)
P 		69
C 136.1
(0.6)
P 		164.1
(3)
P 		120.6
(-0.7)
P 		93.2
(-3)
P 		93.7
(-3)
P 		95.1
(-2.8)
P 		71
avr 121.7
(-0.4) 		170.2
(3) 		104.3
(-1.7) 		96.2
(-2.3) 		109.4
(-1.3) 		85.7
(-3) 		85
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190369_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6671
Sequence Type Exemplar sequence
Representative Public ID F10F2.4 NCBI
Target Description F10F2.4 /REP_DB=WormBase Gene ID /WP=CE00949 /TR=Q19312 /GB=CAA84651.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=2 leucine rich 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_065542(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065542 NCBI Caenorhabditis elegans F10F2.4 (F10F2.4) mRNA, complete cds. 10/11 None
SNAP00000027607 ENSEMBL cdna:SNAP chromosome:CEL140:III:4623017:4626050:1 10/11 None
GENEFINDER00000027616 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:4623248:4626050:1 10/11 None
F10F2.4 ENSEMBL cdna:known chromosome:CEL140:III:4623017:4626123:1 gene:F10F2.4 10/11 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:4623016-4626050(+) 100.0 100.0
Public Domain and Genome References
Gene Title 2 leucine rich domains
Ensembl F10F2.4
Entrez Gene 184307 Entrez gene
SwissProt Q19312 EMBL-EBI
WormBase CE31471 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA84651 Hypothetical protein F10F2.4 [Caenorhabditis elegans] ref|NP_497943.2| F10F2.4 [Caenorhabditis elegans] 0.0
blast CAE71170 Hypothetical protein CBG18027 [Caenorhabditis briggsae] 0.0
blast EAA00258 ENSANGP00000015265 [Anopheles gambiae str. PEST] ref|XP_320584.2| ENSANGP00000015265 [Anopheles gambiae str. PEST] 3.0E-15
Protein Domains
Database ID Description E-Value
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0062
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 1.1E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.08
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0016
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.16
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.012
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.07
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.02
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.08
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0016
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.16
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.012
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.07
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_497943.2 1 611-633
F10F2.4 1 611-633
SNAP00000027607 1 611-633
GENEFINDER00000027616 1 547-569
Sequence
Target Sequence 
>C. ELEGANS:190369_AT
ggatgagcttacttcacttgttgatttggatatttcgaattcaggattagaattctctct
tcattggagacatttgagaactctaaagtcactgattcttcgaggaaatgaaattcgaat
tattgattcaaaatcacttccagagaatttgaggactctggatttgggcgagaatcgagt
gcaattcacatcaaacttttcgaagttggagcatttgaggttagtcgggaagaacttttt
gaccagtttaagtaataataataaaaattcccatacggttccagtatcagatttacgagt
tgatcaaaatcctctccgatgtgattgttccctgtatgacattgtgccacatcttctaaa
tcaaagtcaaatatctgatccactactctattattgcttctcaggatcctggcaatatcc
cctacttccgtatcttgcgtcagtaaagccatgcgttgacacaactcgtaacttttattc
aatcctaataaccacatttatcatcgcattcgccattgtggcaggactcattggtggttt
cctagtgtatagaaagtatgcggatcgagccaattttgtgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGATGAGCTTACTTCACTTGTTGAT 424 513 1431 Antisense
ATTCCCATACGGTTCCAGTATCAGA 192 9 1697 Antisense
AATCCTCTCCGATGTGATTGTTCCC 491 167 1738 Antisense
GTTCCCTGTATGACATTGTGCCACA 691 441 1757 Antisense
GATCCACTACTCTATTATTGCTTCT 228 415 1807 Antisense
TCAGGATCCTGGCAATATCCCCTAC 399 623 1831 Antisense
CTACTTCCGTATCTTGCGTCAGTAA 634 223 1852 Antisense
GTAAAGCCATGCGTTGACACAACTC 642 461 1873 Antisense
TATCATCGCATTCGCCATTGTGGCA 75 659 1929 Antisense
TGTGGCAGGACTCATTGGTGGTTTC 12 555 1947 Antisense
TATGCGGATCGAGCCAATTTTGTGT 335 655 1987 Antisense
Sequence Source Affymetrix Proprietary Database