[Home] | [Total List]

[172391_x_at]

Description F39D8.1A /REP_DB=WormBase Gene ID /WP=CE17810 /TR=Q20189 /GB=CAA93660.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 91      6grp_high1_10_10 > 29      4grp_highest_8_8 > 08      4grp_high_8_8 > 44      6grp_highest_nonorm > 60      6grp_total > 28      4grp_total > 51      6grp_cgc > 03      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 612
1 2 3 4 range
A 520.6
(0.4)
P 		768.8
(3)
P 		621.8
(1.4)
P 		204.9
(-3)
P 		564
B 600.4
(1.7)
P 		715.3
(3)
P 		476.2
(0.3)
P 		175.7
(-3)
P 		540
C 470.1
(0.4)
P 		714.3
(3)
P 		489
(0.6)
P 		157
(-3)
P 		557
avr 530.4
(0.8) 		732.8
(3) 		529
(0.8) 		179.2
(-3) 		554

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 282
1 2 3 4 5 6 range
A 491.9
(3)
P 		430.7
(1.7)
P 		209.9
(-3)
P 		301.1
(-1.1)
P 		344.3
(-0.1)
P 		406.9
(1.2)
P 		282
B 396.9
(2.6)
P 		408.6
(3)
P 		254.7
(-2.3)
P 		232.9
(-3)
P 		388.6
(2.3)
P 		299.2
(-0.7)
P 		176
C 427
(2.1)
P 		460.9
(3)
P 		322
(-0.7)
P 		234.7
(-3)
P 		410.8
(1.7)
P 		303.9
(-1.2)
P 		226
avr 438.6
(3) 		433.4
(2.8) 		262.2
(-2.8) 		256.2
(-3) 		381.2
(1.1) 		336.7
(-0.4) 		182
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 179
1 2 3 4 range
A 189.6
(3)
P 		166.9
(2.1)
P 		162.5
(2)
P 		30
(-3)
P 		160
B 191.5
(3)
P 		176.7
(2.4)
P 		110.4
(-0.2)
P 		37.4
(-3)
P 		154
C 155.6
(1.3)
P 		205.4
(3)
P 		170.4
(1.8)
P 		26.5
(-3)
P 		179
avr 178.9
(2.8) 		183
(3) 		147.8
(1.6) 		31.3
(-3) 		152

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 113
1 2 3 4 5 6 range
A 90.7
(-0.5)
P 		153.2
(3)
P 		45.7
(-3)
P 		76.4
(-1.3)
P 		103.9
(0.2)
P 		99.1
(-0)
P 		108
B 138.1
(1.8)
P 		136
(1.6)
P 		61.8
(-3)
P 		61.7
(-3)
P 		157.9
(3)
P 		111.6
(0.1)
P 		96
C 158.3
(3)
P 		140.6
(2)
P 		82
(-1.1)
P 		47.2
(-3)
P 		132.9
(1.6)
P 		101.7
(-0.1)
P 		111
avr 129
(1.9) 		143.3
(3) 		63.2
(-2.9) 		61.8
(-3) 		131.6
(2.1) 		104.1
(0.1) 		82
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172391_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17871
Sequence Type Exemplar sequence
Representative Public ID F39D8.1A NCBI
Target Description F39D8.1A /REP_DB=WormBase Gene ID /WP=CE17810 /TR=Q20189 /GB=CAA93660.1 /SUBMIT=HINXTON /CHR=X /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_078145(11), NM_078146(10), NM_078144(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078145 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-36) (pqn-36) mRNA, complete cds. 11/11 A 
NM_078146 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-36) (pqn-36) mRNA, complete cds. 10/11 A 
NM_078144 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-36) (pqn-36) mRNA, complete cds. 10/11 A 
SNAP00000018944 ENSEMBL cdna:SNAP chromosome:CEL140:X:15409259:15413490:-1 11/11 None
GENEFINDER00000018948 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:15409259:15413738:-1 11/11 None
F39D8.1a ENSEMBL cdna:known chromosome:CEL140:X:15409092:15413538:-1 gene:F39D8.1 11/11 A 
F39D8.1c ENSEMBL cdna:known chromosome:CEL140:X:15409094:15413302:-1 gene:F39D8.1 10/11 A 
F39D8.1b ENSEMBL cdna:known chromosome:CEL140:X:15409259:15415410:-1 gene:F39D8.1 10/11 A 
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:15409258-15413302(-) 100.0 100.0
Public Domain and Genome References
Ensembl F39D8.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA93660 Hypothetical protein F39D8.1a [Caenorhabditis elegans] ref|NP_510546.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-36) [Caenorhabditis elegans] 0.0
blast CAA93662 Hypothetical protein F39D8.1c [Caenorhabditis elegans] ref|NP_510547.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-36) [Caenorhabditis elegans] 0.0
blast CAA93661 Hypothetical protein F39D8.1b [Caenorhabditis elegans] ref|NP_510545.1| Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-36) [Caenorhabditis elegans] 0.0
Sequence
Target Sequence 
>C. ELEGANS:172391_X_AT
tcaaccgggttccaatcaaccactggaatgccgaccacgaacgatcaatccggttttatc
gcctcgtccacaatggatccgaacatgccacaagcgcaatatccaagtcaacaagaaata
atgacggcgaccggccaacaatccgatcaatcgaacagtgctaatatggtgtccaccccc
gcgccacagtttccaagtcaacaggaactcggtgccacatcgcaaaacacgcagcctaca
ccagtcccacagttcccagctcaacaagacttgggatccactgccggccagaatggtaac
tttaatggccagcaaaacggcggtggtttcacacaacaggctgctggtgtgacacctcaa
ttcccaagtcaacaggagctgattcaaagagatcagcagaatattggagttacaggacaa
cctgtcaatgatgctggtttcacacctcaatacggagacatgaatacacaatacggacgg
tacgcatctagcacagccgttaaagcgtcatcga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAACCGGGTTCCAATCAACCACTG 352 629 2227 Antisense
GAATGCCGACCACGAACGATCAATC 95 331 2252 Antisense
CGATCAATCCGGTTTTATCGCCTCG 264 249 2268 Antisense
TAATGACGGCGACCGGCCAACAATC 186 635 2345 Antisense
TCGGTGCCACATCGCAAAACACGCA 492 605 2435 Antisense
ACAGTTCCCAGCTCAACAAGACTTG 694 107 2475 Antisense
ACAACAGGCTGCTGGTGTGACACCT 678 111 2559 Antisense
GTGACACCTCAATTCCCAAGTCAAC 281 483 2575 Antisense
TGATGCTGGTTTCACACCTCAATAC 229 567 2655 Antisense
ATACGGACGGTACGCATCTAGCACA 623 23 2697 Antisense
AGCACAGCCGTTAAAGCGTCATCGA 99 75 2716 Antisense
Sequence Source Affymetrix Proprietary Database