[Home] | [Total List]

[194223_x_at] --- /// --- /// ---

Description CEC3896 /REP_DB=TREMBL Accession /GB=C13389 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk170h12 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 67      6grp_high1_10_10 > 86      4grp_highest_8_8 > 18      4grp_high_8_8 > 62      6grp_highest_nonorm > 59      6grp_total > 76      4grp_total > 56      6grp_highest_sub > In      6grp_cgc > 48      6grp_high1_sub > In      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3643
1 2 3 4 range
A 1584.2
(-0.8)
P 		2527.7
(0.9)
P 		3666.2
(3)
P 		394.2
(-3)
P 		3272
B 1533.7
(-0.9)
P 		2551.3
(0.8)
P 		3894.6
(3)
P 		251.4
(-3)
P 		3643
C 1439.2
(-1.1)
P 		2333.9
(0.8)
P 		3413.1
(3)
P 		509.8
(-3)
P 		2903
avr 1519
(-0.9) 		2471
(0.8) 		3658
(3) 		385.1
(-3) 		3273

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5499
1 2 3 4 5 6 range
A 1549.1
(-3)
P 		1872.1
(-2.6)
P 		2842.3
(-1.3)
P 		2350.3
(-2)
P 		2322.5
(-2)
P 		6204.4
(3)
P 		4655
B 1104.9
(-3)
P 		2094.5
(-1.9)
P 		1779.9
(-2.3)
P 		2693.9
(-1.3)
P 		2320.4
(-1.7)
P 		6581.5
(3)
P 		5477
C 1082.4
(-3)
P 		1887.4
(-1.8)
P 		2556.7
(-0.8)
P 		2286.7
(-1.2)
P 		2410.5
(-1.1)
P 		5187.6
(3)
P 		4105
avr 1245.5
(-3) 		1951.3
(-2.1) 		2393
(-1.5) 		2443.6
(-1.5) 		2351.1
(-1.6) 		5991.2
(3) 		4746
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1136
1 2 3 4 range
A 576.8
(0.5)
P 		548.7
(0.3)
P 		958.4
(3)
P 		57.7
(-3)
P 		901
B 489.1
(0.1)
P 		630.1
(1.1)
P 		902.5
(3)
P 		53.6
(-3)
P 		849
C 476.4
(-0.9)
P 		671
(0.2)
P 		1189.6
(3)
P 		86
(-3)
P 		1104
avr 514.1
(-0.2) 		616.6
(0.5) 		1016.8
(3) 		65.8
(-3) 		951

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2169
1 2 3 4 5 6 range
A 285.6
(-3)
P 		665.8
(-1.1)
P 		619
(-1.4)
P 		596.1
(-1.5)
P 		700.8
(-1)
P 		1510.6
(3)
P 		1225
B 384.4
(-3)
P 		697.2
(-2.1)
P 		432.2
(-2.9)
P 		713.5
(-2)
P 		942.7
(-1.4)
P 		2454.2
(3)
P 		2070
C 401.2
(-3)
P 		575.9
(-2.2)
P 		650.7
(-1.9)
P 		459.9
(-2.7)
P 		780
(-1.3)
P 		1736.6
(3)
P 		1335
avr 357.1
(-3) 		646.3
(-1.9) 		567.3
(-2.2) 		589.8
(-2.1) 		807.8
(-1.2) 		1900.5
(3) 		1543
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194223_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22098
Sequence Type Exemplar sequence
Representative Public ID CEC3896 NCBI
Target Description CEC3896 /REP_DB=TREMBL Accession /GB=C13389 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk170h12 : 5prime 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_001029179(11), NM_001029178(10), NM_001029182(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029179 NCBI Caenorhabditis elegans Nematode Specific Peptide family, group C family member (nspc-6) (nspc-6) mRNA, complete cds. 11/11 None
NM_001029178 NCBI Caenorhabditis elegans Nematode Specific Peptide family, group C family member (nspc-5) (nspc-5) mRNA, complete cds. 10/11 None
NM_001029182 NCBI Caenorhabditis elegans Nematode Specific Peptide family, group C family member (nspc-2) (nspc-2) mRNA, complete cds. 11/11 None
GENEFINDER00000026294 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:8534545:8535756:1 11/11 None
GENEFINDER00000026297 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:8538064:8539200:1 10/11 None
GENEFINDER00000026295 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:8541083:8542013:-1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001029177 3/11 Cross Hyb Matching Probes None
NM_171744 4/11 Cross Hyb Matching Probes B 
NM_001029181 3/11 Cross Hyb Matching Probes None
NM_001029176 3/11 Cross Hyb Matching Probes None
NM_077669 1/11 Cross Hyb Matching Probes B 
NM_182450 1/11 Cross Hyb Matching Probes B 
NM_001029486 1/11 Cross Hyb Matching Probes None
NM_182449 1/11 Cross Hyb Matching Probes B 
NM_077673 1/11 Cross Hyb Matching Probes B 
SNAP00000001329 1/11 Cross Hyb Matching Probes None
GENEFINDER00000001336 1/11 Cross Hyb Matching Probes None
SNAP00000001333 1/11 Cross Hyb Matching Probes None
GENEFINDER00000026296 3/11 Cross Hyb Matching Probes None
C03G5.8 3/11 Cross Hyb Matching Probes None
C03G5.2 4/11 Cross Hyb Matching Probes None
F42F12.1 1/11 Cross Hyb Matching Probes None
F42F12.9 1/11 Cross Hyb Matching Probes B 
F42F12.10 1/11 Cross Hyb Matching Probes None
F42F12.7 1/11 Cross Hyb Matching Probes None
F42F12.8.2 1/11 Cross Hyb Matching Probes B 
F42F12.8.1 1/11 Cross Hyb Matching Probes B 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:8535460-8535794(+) 100.0 100.0
chrX:8541042-8541376(-) 100.0 100.0
Public Domain and Genome References
Gene Title


Gene Symbol nspc-5
nspc-6
nspc-2
Entrez Gene 3564795 Entrez gene
3564889 Entrez gene
3566000 Entrez gene
WormBase CE38677 Wormbase
CE38677 Wormbase
CE38677 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAY55847 Nematode specific peptide family, group c protein 2 [Caenorhabditis elegans] gb|AAY55846.1| Nematode specific peptide family, group c protein 6 [Caenorhabditis elegans] gb|AAY55845.1| Nematode specific peptide family, group c protein 5 [Caenorhabditis elegans] ref|NP_001024350.1| Nematode Specific Peptide family, group C family member (nspc-6) [Caenorhabditis elegans] ref|NP_001024353.1| Nematode Specific Peptide family, group C family member (nspc-2) [Caenorhabditis elegans] ref|NP_001024349.1| Nematode Specific Peptide family, group C family member (nspc-5) [Caenorhabditis elegans] 9.0E-57
blast AAY55847 Nematode specific peptide family, group c protein 2 [Caenorhabditis elegans] gb|AAY55846.1| Nematode specific peptide family, group c protein 6 [Caenorhabditis elegans] gb|AAY55845.1| Nematode specific peptide family, group c protein 5 [Caenorhabditis elegans] ref|NP_001024350.1| Nematode Specific Peptide family, group C family member (nspc-6) [Caenorhabditis elegans] ref|NP_001024353.1| Nematode Specific Peptide family, group C family member (nspc-2) [Caenorhabditis elegans] ref|NP_001024349.1| Nematode Specific Peptide family, group C family member (nspc-5) [Caenorhabditis elegans] 5.0E-56
blast AAY55844 Nematode specific peptide family, group c protein 4 [Caenorhabditis elegans] ref|NP_001024348.1| Nematode Specific Peptide family, group C family member (nspc-4) [Caenorhabditis elegans] 7.0E-56
blast AAY55847 Nematode specific peptide family, group c protein 2 [Caenorhabditis elegans] gb|AAY55846.1| Nematode specific peptide family, group c protein 6 [Caenorhabditis elegans] gb|AAY55845.1| Nematode specific peptide family, group c protein 5 [Caenorhabditis elegans] ref|NP_001024350.1| Nematode Specific Peptide family, group C family member (nspc-6) [Caenorhabditis elegans] ref|NP_001024353.1| Nematode Specific Peptide family, group C family member (nspc-2) [Caenorhabditis elegans] ref|NP_001024349.1| Nematode Specific Peptide family, group C family member (nspc-5) [Caenorhabditis elegans] 8.0E-56
blast AAY55847 Nematode specific peptide family, group c protein 2 [Caenorhabditis elegans] gb|AAY55846.1| Nematode specific peptide family, group c protein 6 [Caenorhabditis elegans] gb|AAY55845.1| Nematode specific peptide family, group c protein 5 [Caenorhabditis elegans] ref|NP_001024350.1| Nematode Specific Peptide family, group C family member (nspc-6) [Caenorhabditis elegans] ref|NP_001024353.1| Nematode Specific Peptide family, group C family member (nspc-2) [Caenorhabditis elegans] ref|NP_001024349.1| Nematode Specific Peptide family, group C family member (nspc-5) [Caenorhabditis elegans] 1.0E-55
blast AAL65774 Nematode specific peptide family, group c protein 7 [Caenorhabditis elegans] ref|NP_741862.1| Nematode Specific Peptide family, group C family member (nspc-7) [Caenorhabditis elegans] 2.0E-55
Sequence
Target Sequence 
>C. ELEGANS:194223_X_AT
ttgccttgtttctgctatcagtaccattaccttggaactctgtcaagaattctgtgctgg
tgtcaacggtggtgaatcttacgcatactgctctccatggatcagtttcgccactcaaac
caacaagacttgctataatctctgtgttcataactgtgctgctgtctatgatggttcctg
cactaccgaccctgacttcagatgctgcttgaaaaccactccagctaagactcaagaatt
caagactagtggctgcaacaagctttat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTGCCTTGTTTCTGCTATCAGTACC 75 703 28 Antisense
GTACCATTACCTTGGAACTCTGTCA 611 457 48 Antisense
AGAATTCTGTGCTGGTGTCAACGGT 65 77 73 Antisense
TGAATCTTACGCATACTGCTCTCCA 458 575 100 Antisense
TGCTCTCCATGGATCAGTTTCGCCA 472 581 116 Antisense
GACTTGCTATAATCTCTGTGTTCAT 573 371 154 Antisense
GTGTTCATAACTGTGCTGCTGTCTA 216 485 171 Antisense
GTCTATGATGGTTCCTGCACTACCG 30 469 191 Antisense
CGACCCTGACTTCAGATGCTGCTTG 278 251 214 Antisense
AAAACCACTCCAGCTAAGACTCAAG 237 131 239 Antisense
GACTAGTGGCTGCAACAAGCTTTAT 656 371 271 Antisense
Sequence Source Affymetrix Proprietary Database