[Home] | [Total List]

[186055_at]

Description F09D12.1 /REP_DB=WormBase Gene ID /WP=CE16971 /TR=O44471 /GB=AAB92033.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 35      6grp_high1_10_10 > 53      4grp_highest_8_8 > 08      4grp_high_8_8 > 44      6grp_highest_nonorm > 34      6grp_total > 52      4grp_total > 51      6grp_highest_sub > 03      6grp_cgc > 82      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1585
1 2 3 4 range
A 1243.6
(0.8)
P 		1681.1
(3)
P 		1550.9
(2.3)
P 		501.7
(-3)
P 		1179
B 1092.7
(-0.9)
P 		1652.5
(3)
P 		1512.8
(2)
P 		785.8
(-3)
P 		867
C 1408.5
(0.4)
P 		2087.1
(3)
P 		1523.1
(0.9)
P 		511.4
(-3)
P 		1576
avr 1248.3
(0.2) 		1806.9
(3) 		1528.9
(1.6) 		599.6
(-3) 		1207

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3440
1 2 3 4 5 6 range
A 1355.9
(-2.6)
P 		2400.6
(-0.6)
P 		4189.6
(3)
P 		1961
(-1.4)
P 		1174.6
(-3)
P 		1485.4
(-2.4)
P 		3015
B 1427.5
(-3)
P 		2880.1
(-0.3)
P 		4614.4
(3)
P 		1960
(-2)
P 		1584.5
(-2.7)
P 		1418.3
(-3)
P 		3196
C 2339.3
(1)
P 		2886.9
(3)
P 		2738.8
(2.5)
P 		2248.4
(0.7)
P 		1255.2
(-3)
P 		1712
(-1.3)
P 		1632
avr 1707.6
(-2.1) 		2722.5
(0.3) 		3847.6
(3) 		2056.5
(-1.3) 		1338.1
(-3) 		1538.6
(-2.5) 		2510
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 527
1 2 3 4 range
A 452.8
(3)
P 		364.9
(1.6)
P 		405.4
(2.3)
P 		73.4
(-3)
P 		379
B 348.5
(1.5)
P 		408.1
(3)
P 		350.6
(1.6)
P 		167.5
(-3)
P 		241
C 466.2
(1.4)
P 		600
(3)
P 		530.8
(2.2)
P 		86.2
(-3)
P 		514
avr 422.5
(2.4) 		457.7
(3) 		428.9
(2.5) 		109
(-3) 		349

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 871
1 2 3 4 5 6 range
A 250
(-3)
P 		853.8
(2.5)
P 		912.4
(3)
P 		497.4
(-0.8)
P 		354.4
(-2.1)
P 		361.6
(-2)
P 		662
B 496.7
(-3)
P 		958.7
(1.4)
P 		1120.5
(3)
P 		519.1
(-2.8)
P 		643.7
(-1.6)
P 		528.9
(-2.7)
P 		624
C 867.1
(2.8)
P 		880.9
(3)
P 		697.1
(0.7)
P 		452.2
(-2.4)
P 		406.2
(-3)
P 		573.1
(-0.9)
P 		475
avr 537.9
(-2.1) 		897.8
(2.8) 		910
(3) 		489.6
(-2.7) 		468.1
(-3) 		487.9
(-2.7) 		442
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186055_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11202
Sequence Type Exemplar sequence
Representative Public ID F09D12.1 NCBI
Target Description F09D12.1 /REP_DB=WormBase Gene ID /WP=CE16971 /TR=O44471 /GB=AAB92033.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=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_067946(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067946 NCBI Caenorhabditis elegans GRounDhog (hedgehog-like family) family member (grd-10) (grd-10) mRNA, complete cds. 11/11 None
SNAP00000007128 ENSEMBL cdna:SNAP chromosome:CEL140:IV:3441175:3441637:1 11/11 None
GENEFINDER00000007131 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:3441175:3441637:1 11/11 None
F09D12.1 ENSEMBL cdna:known chromosome:CEL140:IV:3441175:3441637:1 gene:F09D12.1 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
chrIV:3441180-3441643(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol grd-10
Ensembl F09D12.1
Entrez Gene 184239 Entrez gene
SwissProt O44471 EMBL-EBI
WormBase CE16971 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB92033 Groundhog (hedgehog-like family) protein 10 [Caenorhabditis elegans] ref|NP_500347.1| GRounDhog (hedgehog-like family) family member (grd-10) [Caenorhabditis elegans] 2.0E-49
blast AAB65952 Groundhog (hedgehog-like family) protein 5 [Caenorhabditis elegans] ref|NP_505223.1| GRounDhog (hedgehog-like family) family member (grd-5) [Caenorhabditis elegans] 5.0E-42
blast CAE58352 Hypothetical protein CBG01473 [Caenorhabditis briggsae] 3.0E-40
Protein Domains
Database ID Description E-Value
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 1.4E-25
Sequence
Target Sequence 
>C. ELEGANS:186055_AT
gttactgtttgcttcgcacaggacaattgttatattaatgagggaggcttcacatgctgc
aacaaggagctcgagtccgtcatgaaaagctcgttgggaggaagtgaccttgtcggatct
gccggggacattcaaaagggagcagaagggtcgttgggtggaaagttcgagaccgtcgtt
gcccatgatgatttcgcctacaaatctcacttccagga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTACTGTTTGCTTCGCACAGGACA 623 445 46 Antisense
ATGAGGGAGGCTTCACATGCTGCAA 517 45 83 Antisense
GGCTTCACATGCTGCAACAAGGAGC 594 537 91 Antisense
CAAGGAGCTCGAGTCCGTCATGAAA 682 183 108 Antisense
AGTCCGTCATGAAAAGCTCGTTGGG 673 57 119 Antisense
AGGAAGTGACCTTGTCGGATCTGCC 408 55 144 Antisense
TCGGATCTGCCGGGGACATTCAAAA 317 607 158 Antisense
GGGAGCAGAAGGGTCGTTGGGTGGA 136 491 183 Antisense
TGGAAAGTTCGAGACCGTCGTTGCC 414 545 204 Antisense
TTGCCCATGATGATTTCGCCTACAA 547 701 224 Antisense
TCGCCTACAAATCTCACTTCCAGGA 66 597 239 Antisense
Sequence Source Affymetrix Proprietary Database