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[186098_s_at]

Description K07F5.13A /REP_DB=WormBase Gene ID /WP=CE06127 /TR=Q21295 /GB=CAA94281.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 55      6grp_high1_10_10 > 55      4grp_highest_8_8 > 24      4grp_high_8_8 > 52      6grp_highest_nonorm > 72      6grp_total > 55      4grp_total > 52      6grp_cgc > 46      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 148
1 2 3 4 range
A 413.4
(1.7)
P 		436.3
(3)
P 		406.4
(1.3)
P 		331.4
(-3)
P 		105
B 417.1
(-0.7)
P 		479.1
(3)
P 		436
(0.4)
P 		379.3
(-3)
P 		100
C 408.2
(3)
P 		382.8
(0.6)
P 		387.3
(1)
P 		345.5
(-3)
P 		63
avr 412.9
(1.5) 		432.7
(3) 		409.9
(1.3) 		352.1
(-3) 		81

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 214
1 2 3 4 5 6 range
A 313.2
(-3)
P 		371.3
(0.7)
P 		391.8
(2)
P 		351.5
(-0.6)
P 		334.6
(-1.6)
P 		407.3
(3)
P 		94
B 407.5
(-0.6)
P 		443.1
(0.5)
P 		526.7
(3)
P 		411
(-0.5)
P 		325.9
(-3)
P 		437.6
(0.3)
P 		201
C 411.7
(0.3)
P 		409.5
(0.2)
P 		382.8
(-1.1)
P 		404.4
(-0)
P 		343.6
(-3)
P 		466.2
(3)
P 		123
avr 377.5
(-0.5) 		408
(1.3) 		433.8
(2.8) 		389
(0.2) 		334.7
(-3) 		437
(3) 		102
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 102
1 2 3 4 range
A 150.5
(3)
P 		94.7
(-0.3)
P 		106.3
(0.4)
P 		48.5
(-3)
P 		102
B 133
(3)
P 		118.3
(1.3)
P 		101
(-0.7)
P 		80.8
(-3)
P 		52
C 135.1
(3)
P 		110
(1)
P 		135
(3)
P 		58.2
(-3)
P 		77
avr 139.5
(3) 		107.7
(0.5) 		114.1
(1) 		62.5
(-3) 		77

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 106
1 2 3 4 5 6 range
A 57.7
(-3)
P 		132.1
(3)
P 		85.3
(-0.8)
P 		89.2
(-0.5)
P 		101
(0.5)
P 		99.2
(0.3)
P 		74
B 141.8
(0.6)
P 		147.5
(1.3)
P 		127.9
(-0.9)
P 		108.9
(-3)
P 		132.4
(-0.4)
P 		163.2
(3)
P 		54
C 152.6
(2.7)
P 		124.9
(0.5)
P 		97.4
(-1.7)
P 		81.3
(-3)
P 		111.2
(-0.6)
P 		156.1
(3)
P 		75
avr 117.4
(0.1) 		134.8
(2.4) 		103.5
(-1.7) 		93.1
(-3) 		114.9
(-0.2) 		139.5
(3) 		46
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 186098_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8528
Sequence Type Exemplar sequence
Representative Public ID K07F5.13A NCBI
Target Description K07F5.13A /REP_DB=WormBase Gene ID /WP=CE06127 /TR=Q21295 /GB=CAA94281.1 /SUBMIT=HINXTON /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_069370(11), NM_069369(11), NM_069371(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069370 NCBI Caenorhabditis elegans Nuclear Pore complex Protein family member (npp-1) (npp-1) mRNA, complete cds. 11/11 None
NM_069369 NCBI Caenorhabditis elegans Nuclear Pore complex Protein family member (npp-1) (npp-1) mRNA, complete cds. 11/11 None
NM_069371 NCBI Caenorhabditis elegans Nuclear Pore complex Protein family member (npp-1) (npp-1) mRNA, complete cds. 11/11 None
SNAP00000004256 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9859345:9861718:1 11/11 None
GENEFINDER00000004260 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9855991:9861718:1 11/11 None
K07F5.13c ENSEMBL cdna:known chromosome:CEL140:IV:9858449:9862080:1 gene:K07F5.13 11/11 A 
K07F5.13b.2 ENSEMBL cdna:known chromosome:CEL140:IV:9858459:9861718:1 gene:K07F5.13 11/11 None
K07F5.13b.1 ENSEMBL cdna:known chromosome:CEL140:IV:9858461:9861718:1 gene:K07F5.13 11/11 None
K07F5.13a ENSEMBL cdna:known chromosome:CEL140:IV:9859286:9861718:1 gene:K07F5.13 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:9859350-9861724(+) 100.0 100.0
Public Domain and Genome References
Ensembl K07F5.13
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB54278 Hypothetical protein K07F5.13b [Caenorhabditis elegans] ref|NP_501771.1| Nuclear Pore complex Protein family member (npp-1) [Caenorhabditis elegans] 0.0
blast CAA94281 Hypothetical protein K07F5.13a [Caenorhabditis elegans] ref|NP_501772.1| Nuclear Pore complex Protein family member (npp-1) [Caenorhabditis elegans] 0.0
blast CAB54280 Hypothetical protein K07F5.13c [Caenorhabditis elegans] ref|NP_501770.1| Nuclear Pore complex Protein family member (npp-1) [Caenorhabditis elegans] 0.0
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000004260 8 15-37,44-66,70-92,99-121,136-155,198-217,237-259,268-290
Sequence
Target Sequence 
>C. ELEGANS:186098_S_AT
atcaaagaaaacccagctccaaacaaacttcttcctgttccagtacgtggatgggaagca
ttaagagacagacagaaggctcaagttggcgagtcgaaactattccacgaggcaattaat
gcattgggaaatcgtgttgaagaagctaatcatgaacatgcagatgcagttgttaagatg
gagattattcgtaatcgccataaaactctctcgtacagaattgttcgtgttatgcttgca
caatggattgtatcaagatattcacgtcaaattgacactgatgaggatgtaattgaagct
aaagctgatacacttcttgcccaaatgaatcgtcataatcaagtgaagttttatgtcgac
aaattctacgagattttggaatcaaaaccggataaacttcaagaatcaatgtggaaaatg
tttgatatgacaattgaagatgaacactatgctcgtagagtgcttaccaaatttgttaat
atttgctctggcctttacgagtcaacac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATCAAAGAAAACCCAGCTCCAAACA 264 27 1294 Antisense
GCTCCAAACAAACTTCTTCCTGTTC 671 297 1309 Antisense
CTTCCTGTTCCAGTACGTGGATGGG 583 219 1324 Antisense
GACAGAAGGCTCAAGTTGGCGAGTC 99 359 1364 Antisense
GTTGGCGAGTCGAAACTATTCCACG 213 435 1378 Antisense
AATCGCCATAAAACTCTCTCGTACA 533 167 1486 Antisense
GAATTGTTCGTGTTATGCTTGCACA 517 323 1511 Antisense
GCTAAAGCTGATACACTTCTTGCCC 146 303 1591 Antisense
ACTTCTTGCCCAAATGAATCGTCAT 427 103 1605 Antisense
ACTATGCTCGTAGAGTGCTTACCAA 304 101 1739 Antisense
TGCTCTGGCCTTTACGAGTCAACAC 224 579 1777 Antisense
Sequence Source Affymetrix Proprietary Database