[Home] | [Total List]

[174043_at]

Description g6804 /REP_DB=GenBank Identifier /CHR=3 /FEA=Genomic Cluster
Cluster 6grp_highest_10_10 > 79      6grp_high1_10_10 > 97      4grp_highest_8_8 > 31      4grp_high_8_8 > 20      6grp_highest_nonorm > 94      6grp_total > 96      4grp_total > 11      6grp_highest_sub > In      6grp_cgc > 68      6grp_high1_sub > In      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 197
1 2 3 4 range
A 222.7
(-0.5)
P 		242.9
(0.2)
P 		156.8
(-3)
P 		316.4
(3)
P 		160
B 193.9
(-1.8)
P 		217.3
(-1.1)
P 		155.4
(-3)
P 		351.9
(3)
P 		197
C 209.4
(-1.5)
P 		175.3
(-2.7)
P 		166.2
(-3)
P 		339.9
(3)
P 		174
avr 208.7
(-1.3) 		211.8
(-1.2) 		159.5
(-3) 		336.1
(3) 		177

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1321
1 2 3 4 5 6 range
A 215.5
(-2.8)
P 		205.6
(-2.9)
P 		190.6
(-3)
P 		415.8
(-1.5)
P 		1073.6
(3)
P 		892.5
(1.8)
P 		883
B 197.4
(-2.5)
P 		354
(-1.8)
P 		80.9
(-3)
P 		432.2
(-1.4)
P 		573.5
(-0.8)
P 		1401.4
(3)
P 		1321
C 167.8
(-3)
P 		281.8
(-1.8)
P 		282.3
(-1.8)
P 		508.5
(0.6)
P 		619
(1.7)
P 		743.6
(3)
P 		576
avr 193.6
(-2.9) 		280.5
(-2.3) 		184.6
(-3) 		452.2
(-1.1) 		755.4
(1.1) 		1012.5
(3) 		828
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 45
1 2 3 4 range
A 81.1
(3)
P 		52.7
(-1.2)
P 		41
(-3)
P 		46.3
(-2.2)
P 		40
B 61.8
(1)
P 		53.7
(-0.3)
P 		36
(-3)
P 		75
(3)
P 		39
C 69.3
(3)
P 		50.4
(-3)
P 		57.9
(-0.6)
P 		57.3
(-0.8)
P 		19
avr 70.7
(3) 		52.3
(-1.3) 		45
(-3) 		59.5
(0.4) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 503
1 2 3 4 5 6 range
A 39.7
(-3)
P 		73.1
(-2.3)
P 		41.5
(-3)
P 		105.5
(-1.6)
P 		324
(3)
P 		217.3
(0.7)
P 		284
B 68.7
(-2.4)
P 		117.8
(-1.8)
P 		19.6
(-3)
P 		114.5
(-1.9)
P 		233
(-0.5)
P 		522.6
(3)
P 		503
C 62.2
(-3)
P 		86
(-2.2)
P 		71.9
(-2.7)
P 		102.3
(-1.7)
P 		200.3
(1.4)
P 		248.9
(3)
P 		187
avr 56.9
(-2.7) 		92.3
(-2) 		44.3
(-3) 		107.4
(-1.7) 		252.4
(1.4) 		329.6
(3) 		285
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174043_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20921
Sequence Type Exemplar sequence
Representative Public ID 6804 NCBI
Target Description g6804 /REP_DB=GenBank Identifier /CHR=3 /FEA=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_001026038(11), NM_001026039(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026038 NCBI Caenorhabditis elegans Posterior ALae in males family member (pal-1) (pal-1) mRNA, complete cds. 11/11 None
NM_001026039 NCBI Caenorhabditis elegans Posterior ALae in males family member (pal-1) (pal-1) mRNA, complete cds. 11/11 None
C38D4.6a.2 ENSEMBL cdna:known chromosome:CEL140:III:4804670:4808671:-1 gene:C38D4.6 11/11 None
C38D4.6b.1 ENSEMBL cdna:known chromosome:CEL140:III:4804676:4808673:-1 gene:C38D4.6 11/11 None
C38D4.6b.2 ENSEMBL cdna:known chromosome:CEL140:III:4804680:4808671:-1 gene:C38D4.6 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
C38D4.6a.1 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:4804747-4805030(-) 92.23 100.0
Public Domain and Genome References
Ensembl C38D4.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA86322 Hypothetical protein C38D4.6a [Caenorhabditis elegans] ref|NP_001021209.1| Posterior ALae in males family member (pal-1) [Caenorhabditis elegans] 1.0E-124
blast 1709361A pal-1 gene 1.0E-124
blast CAH19082 Hypothetical protein C38D4.6b [Caenorhabditis elegans] ref|NP_001021210.1| Posterior ALae in males family member (pal-1) [Caenorhabditis elegans] pir||T19829 hypothetical protein C38D4.6 - Caenorhabditis elegans 1.0E-122
blast CAH19082 Hypothetical protein C38D4.6b [Caenorhabditis elegans] ref|NP_001021210.1| Posterior ALae in males family member (pal-1) [Caenorhabditis elegans] pir||T19829 hypothetical protein C38D4.6 - Caenorhabditis elegans 1.0E-121
blast CAA86322 Hypothetical protein C38D4.6a [Caenorhabditis elegans] ref|NP_001021209.1| Posterior ALae in males family member (pal-1) [Caenorhabditis elegans] 1.0E-121
blast 1709361A pal-1 gene 1.0E-121
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 4.00000012549758E-22
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 2.99999990479657E-22
Pfam IPR001356 EMBL-EBI Homeobox 3.3E-23
Pfam IPR001356 EMBL-EBI Homeobox 3.3E-23
Sequence
Target Sequence 
>C. ELEGANS:174043_AT
cattctctcacatcagaatattctaatcatcactgcccttaacatatatatatatatatt
tataactttccgatcattccttctgctttgtaaactaatccaatcattctctaatgaatt
attccctaatatagagcttctttatttattgtgatttcttgtttcttacccttctcaagg
tttaggaaaaagtttaggtccccatttgttatgtatttacttcccactctgaacggatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CATTCTCTCACATCAGAATATTCTA 282 217 23 Antisense
GAATATTCTAATCATCACTGCCCTT 679 325 38 Antisense
ATCATCACTGCCCTTAACATATATA 181 31 48 Antisense
TTATAACTTTCCGATCATTCCTTCT 227 679 82 Antisense
ATCATTCCTTCTGCTTTGTAAACTA 292 31 95 Antisense
TATTCCCTAATATAGAGCTTCTTTA 79 663 142 Antisense
GAGCTTCTTTATTTATTGTGATTTC 71 389 156 Antisense
TTGTGATTTCTTGTTTCTTACCCTT 79 707 171 Antisense
GTTTAGGTCCCCATTTGTTATGTAT 69 239 214 Antisense
TGTTATGTATTTACTTCCCACTCTG 632 561 229 Antisense
ATTTACTTCCCACTCTGAACGGATC 324 15 237 Antisense
Sequence Source GenBank