[Home] | [Total List]

[194254_x_at]

Description CEK004FYR_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F39D8.1A /5_PRIME_EXT_DB=WormBase Gene ID /GB=D27358 /WB_GENE_ID=F39D8.1A /WP=CE17810 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk4f11 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 80      6grp_high1_10_10 > 19      4grp_highest_8_8 > 24      4grp_high_8_8 > 52      6grp_highest_nonorm > 60      6grp_total > 16      4grp_total > 51      6grp_cgc > 03      6grp_total_sub > Decrease      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 569
1 2 3 4 range
A 520.1
(0.7)
P 		730.1
(3)
P 		599.2
(1.6)
P 		184.3
(-3)
P 		546
B 542.9
(1.2)
P 		706
(3)
P 		571.8
(1.5)
P 		161
(-3)
P 		545
C 533.1
(2.2)
P 		590
(3)
P 		550
(2.4)
P 		160.7
(-3)
P 		429
avr 532
(1.3) 		675.4
(3) 		573.7
(1.8) 		168.7
(-3) 		507

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 314
1 2 3 4 5 6 range
A 462.6
(2.4)
P 		495.9
(3)
P 		181.8
(-3)
P 		283.1
(-1.1)
P 		371.7
(0.6)
P 		357.8
(0.4)
P 		314
B 428.1
(2.4)
P 		449.7
(3)
P 		266
(-2.1)
P 		264.4
(-2.2)
P 		329.4
(-0.3)
P 		233.9
(-3)
P 		216
C 459.5
(3)
P 		395.8
(0.8)
P 		328.2
(-1.4)
P 		281.8
(-3)
P 		393.8
(0.8)
P 		285.3
(-2.9)
P 		178
avr 450.1
(3) 		447.1
(2.9) 		258.7
(-3) 		276.4
(-2.4) 		365
(0.3) 		292.3
(-1.9) 		191
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 165
1 2 3 4 range
A 189.4
(3)
P 		158.5
(1.9)
P 		156.6
(1.8)
P 		27
(-3)
P 		162
B 173.1
(2.9)
P 		174.4
(3)
P 		132.5
(1.2)
P 		34.3
(-3)
P 		140
C 176.5
(2.4)
P 		169.6
(2.2)
P 		191.7
(3)
P 		27.1
(-3)
P 		165
avr 179.7
(3) 		167.5
(2.5) 		160.3
(2.2) 		29.5
(-3) 		150

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 137
1 2 3 4 5 6 range
A 85.3
(-1)
P 		176.4
(3)
P 		39.6
(-3)
P 		71.8
(-1.6)
P 		112.2
(0.2)
P 		87.1
(-0.9)
P 		137
B 148.9
(2.9)
P 		149.7
(3)
P 		64.6
(-3)
P 		70
(-2.6)
P 		133.8
(1.9)
P 		87.2
(-1.4)
P 		85
C 170.3
(3)
P 		120.8
(0.4)
P 		83.5
(-1.6)
P 		56.7
(-3)
P 		127.4
(0.7)
P 		95.5
(-1)
P 		114
avr 134.8
(2) 		149
(3) 		62.6
(-3) 		66.2
(-2.8) 		124.5
(1.3) 		89.9
(-1.1) 		86
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194254_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26032
Sequence Type Exemplar sequence
Representative Public ID CEK004FYR NCBI
Target Description CEK004FYR_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F39D8.1A /5_PRIME_EXT_DB=WormBase Gene ID /GB=D27358 /WB_GENE_ID=F39D8.1A /WP=CE17810 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk4f11 : 3prime end, single read.
Cluster Evidence This cluster is supported by a 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_078145(10), NM_078146(9), NM_078144(9)
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. 10/11 A 
NM_078146 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-36) (pqn-36) mRNA, complete cds. 9/11 A 
NM_078144 NCBI Caenorhabditis elegans Prion-like-(Q/N-rich)-domain-bearing protein family member (pqn-36) (pqn-36) mRNA, complete cds. 9/11 A 
SNAP00000018944 ENSEMBL cdna:SNAP chromosome:CEL140:X:15409259:15413490:-1 10/11 None
GENEFINDER00000018948 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:15409259:15413738:-1 10/11 None
F39D8.1a ENSEMBL cdna:known chromosome:CEL140:X:15409092:15413538:-1 gene:F39D8.1 10/11 A 
F39D8.1c ENSEMBL cdna:known chromosome:CEL140:X:15409094:15413302:-1 gene:F39D8.1 9/11 A 
F39D8.1b ENSEMBL cdna:known chromosome:CEL140:X:15409259:15415410:-1 gene:F39D8.1 9/11 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:15409259-15413303(-) 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:194254_X_AT
tcaaccgggttccaatcaaccactggaatgccgaccacgaacgatcaatccggttttatc
gcctcgtccacaatggatccgaacatgccacaagcgcaatatccaagtcaacaagaaata
atgacggcgaccggccaacaatccgatcaatcgaacagtgctaatatggtgtccaccccc
gcgccacagtttccaagtcaacaggaactcggtgccacatcgcaaaacacgcagcctaca
ccagtcccacagttcccagctcaacaagacttgggatccactgccggccagaatggtaac
tttaatggccagcaaaacggcggtggtttcacacaacaggctgctggtgtgacacctcaa
ttcccaagtcaacaggagctgattcaaagagatcagcagaatattggagttacaggacaa
cctgtcaaggatgctggtttcacacctcaatacggagacatgaatacacaatacggacgg
tacgcatctagcacagccgttaaagcgtcatcga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAACCGGGTTCCAATCAACCACTG 351 629 2228 Antisense
GAATGCCGACCACGAACGATCAATC 94 331 2253 Antisense
CGATCAATCCGGTTTTATCGCCTCG 263 249 2269 Antisense
TAATGACGGCGACCGGCCAACAATC 185 635 2346 Antisense
TCGGTGCCACATCGCAAAACACGCA 491 605 2436 Antisense
ACAGTTCCCAGCTCAACAAGACTTG 693 107 2476 Antisense
ACAACAGGCTGCTGGTGTGACACCT 677 111 2560 Antisense
GTGACACCTCAATTCCCAAGTCAAC 280 483 2576 Antisense
AAGGATGCTGGTTTCACACCTCAAT 123 161 2654 Antisense
ATACGGACGGTACGCATCTAGCACA 622 23 2698 Antisense
AGCACAGCCGTTAAAGCGTCATCGA 98 75 2717 Antisense
Sequence Source Affymetrix Proprietary Database