[Home] | [Total List]

[180560_s_at]

Description F17C11.8 /REP_DB=WormBase Gene ID /WP=CE05655 /TR=Q19519 /GB=CAA96630.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 72      6grp_high1_10_10 > 37      4grp_highest_8_8 > 31      4grp_high_8_8 > 12      6grp_highest_nonorm > 10      6grp_total > 27      4grp_total > 12      6grp_highest_sub > Cu      6grp_cgc > 15      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1184
1 2 3 4 range
A 1338.6
(-1)
P 		1062.6
(-3)
P 		1064.1
(-3)
P 		1871.8
(3)
P 		809
B 1388.7
(-1)
P 		1363.9
(-1.2)
P 		1028.6
(-3)
P 		2126.6
(3)
P 		1098
C 1453.4
(-1.8)
P 		1432.9
(-2)
P 		1270.4
(-3)
P 		2212.8
(3)
P 		942
avr 1393.6
(-1.3) 		1286.5
(-2) 		1121
(-3) 		2070.4
(3) 		949

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 777
1 2 3 4 5 6 range
A 1621.7
(3)
P 		1313
(0.3)
P 		1067.6
(-1.9)
P 		1052.2
(-2)
P 		944.7
(-3)
P 		1129.6
(-1.4)
P 		677
B 1701.6
(3)
P 		1271.8
(-0.6)
P 		1293.1
(-0.4)
P 		1051.4
(-2.4)
P 		980.4
(-3)
P 		1299.1
(-0.3)
P 		721
C 1566
(3)
P 		1234.5
(-0.1)
P 		1187.2
(-0.5)
P 		1241.3
(-0)
P 		924.4
(-3)
P 		1332.3
(0.8)
P 		642
avr 1629.8
(3) 		1273.1
(-0.1) 		1182.6
(-0.9) 		1115
(-1.5) 		949.8
(-3) 		1253.7
(-0.3) 		680
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 257
1 2 3 4 range
A 487.4
(3)
P 		230.7
(-3)
P 		278.2
(-1.9)
P 		274
(-2)
P 		257
B 442.9
(2.7)
P 		336.8
(-0.3)
P 		238.4
(-3)
P 		453.2
(3)
P 		215
C 481.1
(3)
P 		412
(-0.8)
P 		442.8
(0.9)
P 		373.1
(-3)
P 		108
avr 470.5
(3) 		326.5
(-2.7) 		319.8
(-3) 		366.8
(-1.1) 		151

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 360
1 2 3 4 5 6 range
A 299
(-1.3)
P 		467
(3)
P 		232.5
(-3)
P 		266.8
(-2.1)
P 		285.1
(-1.7)
P 		275
(-1.9)
P 		235
B 592.1
(3)
P 		423.3
(-0.2)
P 		314
(-2.3)
P 		278.5
(-3)
P 		398.3
(-0.7)
P 		484.4
(0.9)
P 		314
C 580.4
(3)
P 		376.7
(-0.7)
P 		302.2
(-2)
P 		249.6
(-3)
P 		299.1
(-2.1)
P 		446
(0.6)
P 		331
avr 490.5
(3) 		422.3
(1.2) 		282.9
(-2.5) 		265
(-3) 		327.5
(-1.3) 		401.8
(0.6) 		226
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 180560_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12747
Sequence Type Exemplar sequence
Representative Public ID F17C11.8 NCBI
Target Description F17C11.8 /REP_DB=WormBase Gene ID /WP=CE05655 /TR=Q19519 /GB=CAA96630.1 /SUBMIT=HINXTON /CHR=5 /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_073397(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073397 NCBI Caenorhabditis elegans Temporarily Assigned Gene name family member (tag-318) (tag-318) mRNA, complete cds. 11/11 None
SNAP00000033900 ENSEMBL cdna:SNAP chromosome:CEL140:V:10961739:10963247:-1 11/11 None
GENEFINDER00000033904 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:10961739:10963526:-1 11/11 None
F17C11.8 ENSEMBL cdna:known chromosome:CEL140:V:10961517:10963526:-1 gene:F17C11.8 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
chrV:10961738-10963526(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol tag-318
Ensembl F17C11.8
Entrez Gene 179520 Entrez gene
SwissProt Q19519 EMBL-EBI
WormBase CE38502 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:250831_AT vacuolar protein sorting 36 family protein / VPS36 family protein at
CANINE:1599784_AT similar to vacuolar protein sorting 36 cfa
CANINE:1592226_AT similar to vacuolar protein sorting 36 cfa
CANINE_2:CFAAFFX.9882.1.S1_AT similar to vacuolar protein sorting 36 cfa
DROSOPHILA_2:1628278_AT dm
DROSGENOME1:148720_AT dm
CHICKEN:GGAAFFX.10904.1.S1_AT similar to CGI-145 protein gga
HU35KSUBC:RC_T54301_AT vacuolar protein sorting 36 (yeast) hs
HU35KSUBD:RC_N29693_AT vacuolar protein sorting 36 (yeast) hs
U133_X3P:HS.146324.0.S2_3P_AT vacuolar protein sorting 36 (yeast) hs
HG-U133_PLUS_2:222478_AT vacuolar protein sorting 36 (yeast) hs
HG-U133B:222478_AT vacuolar protein sorting 36 (yeast) hs
HG-U95C:64932_AT vacuolar protein sorting 36 (yeast) hs
HG-U95E:74824_AT vacuolar protein sorting 36 (yeast) hs
HG-U95E:76545_AT vacuolar protein sorting 36 (yeast) hs
HG-U95E:89127_AT vacuolar protein sorting 36 (yeast) hs
HU35KSUBD:RC_N71777_AT Vacuolar protein sorting 36 (yeast) hs
U133_X3P:HS.109520.0.A1_3P_AT Vacuolar protein sorting 36 (yeast) hs
HG-U133_PLUS_2:240086_AT Vacuolar protein sorting 36 (yeast) hs
HG-U133B:240086_AT Vacuolar protein sorting 36 (yeast) hs
HG-U95C:61752_AT Vacuolar protein sorting 36 (yeast) hs
HG-U95D:82405_AT Vacuolar protein sorting 36 (yeast) hs
MG-U74BV2:113135_AT vacuolar protein sorting 36 (yeast) mm
MG-U74BV2:163707_AT vacuolar protein sorting 36 (yeast) mm
MOE430A:1451343_AT vacuolar protein sorting 36 (yeast) mm
MOUSE430A_2:1451343_AT vacuolar protein sorting 36 (yeast) mm
MOUSE430_2:1451343_AT vacuolar protein sorting 36 (yeast) mm
MOE430A:1424417_AT vacuolar protein sorting 36 (yeast) mm
MOUSE430A_2:1424417_AT vacuolar protein sorting 36 (yeast) mm
MOUSE430_2:1424417_AT vacuolar protein sorting 36 (yeast) mm
MOE430B:1452898_AT vacuolar protein sorting 36 (yeast) mm
MOUSE430_2:1452898_AT vacuolar protein sorting 36 (yeast) mm
MU19KSUBA:TC17902_AT vacuolar protein sorting 36 (yeast) mm
MU19KSUBA:TC23821_AT Vacuolar protein sorting 36 (yeast), mRNA (cDNA clone MGC:19122 IMAGE:4210911) mm
RG-U34B:RC_AA997454_AT similar to RIKEN cDNA 2210415M20 (predicted) rn
RG-U34C:RC_AA858649_AT similar to RIKEN cDNA 2210415M20 (predicted) rn
RAE230A:1389191_AT similar to RIKEN cDNA 2210415M20 (predicted) rn
RAT230_2:1389191_AT similar to RIKEN cDNA 2210415M20 (predicted) rn
RAE230A:1373423_AT Similar to RIKEN cDNA 2210415M20 (predicted) rn
RAT230_2:1373423_AT Similar to RIKEN cDNA 2210415M20 (predicted) rn
RAE230B:1379843_AT Similar to RIKEN cDNA 2210415M20 (predicted) rn
RAT230_2:1379843_AT Similar to RIKEN cDNA 2210415M20 (predicted) rn
RG-U34B:RC_AA963105_AT Similar to RIKEN cDNA 2210415M20 (predicted) rn
RG-U34C:RC_AI170766_AT Similar to RIKEN cDNA 2210415M20 (predicted) rn
YEAST_2:1780183_AT Component of the ESCRT-II complex, which is involved in ubiquitin-dependent sorting of proteins into the endosome Sc
Protein Similarities
Method ID Description E-Value
blast CAA96630 Hypothetical protein F17C11.8 [Caenorhabditis elegans] ref|NP_505798.2| Temporarily Assigned Gene name family member (tag-318) [Caenorhabditis elegans] 0.0
blast CAE75135 Hypothetical protein CBG23064 [Caenorhabditis briggsae] 0.0
blast XP_534484 PREDICTED: similar to vacuolar protein sorting 36 [Canis familiaris] 4.0E-78
blast XP_534484 PREDICTED: similar to vacuolar protein sorting 36 [Canis familiaris] 5.0E-78
Protein Domains
Database ID Description E-Value
scop a.4.5.Lrp/AsnC-like transcriptional regulator N-terminal domain All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; Lrp/AsnC-like transcriptional regulator N-terminal domain 0.140000000596046
Pfam IPR007261 EMBL-EBI Vacuolar protein sorting 36 1.0E-126
Pfam IPR007261 EMBL-EBI Vacuolar protein sorting 36 1.0E-126
Pfam IPR007261 EMBL-EBI Vacuolar protein sorting 36 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:180560_S_AT
accgcacgtgaaatggtcgcactgtcgaaaagtatttcggagaaggttcgatctcgaaaa
ggagaaattagcgaggatgagacgattgcattcaaatcttatcttctttcgctgggagtt
tctgatcctgtcacaaaatcgacattcgttggatcagattccgaatatttccagaaactc
gccaaagaaatatcggatgtactttatgaacatatcaaagaaaacgggggaatgtgtgca
ctaccagaagtgtactgtagaataaatcgagctcgtggtatggaattattatcaccagaa
gacgttatgaatgcatgcggggcactaagtcgcatcaactcacctttggaattacatcga
ttcccttctggagtactcgttgttcaactcaaatcagcatctatggatagtactgtagga
cagacattagaatttgtatcgaagttagaaagagcatctgcaaatgaattagcagaatct
ctaggaataactgtgattttagctagagaaaggttactagcagctgaagaatcgggtcta
atctgccgcgac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACCGCACGTGAAATGGTCGCACTGT 137 85 706 Antisense
GCATTCAAATCTTATCTTCTTTCGC 695 307 793 Antisense
TATCTTCTTTCGCTGGGAGTTTCTG 371 659 805 Antisense
GGAGTTTCTGATCCTGTCACAAAAT 522 517 820 Antisense
ATCGACATTCGTTGGATCAGATTCC 50 37 843 Antisense
ACGGGGGAATGTGTGCACTACCAGA 232 87 929 Antisense
GCGGGGCACTAAGTCGCATCAACTC 258 291 1022 Antisense
GCATCAACTCACCTTTGGAATTACA 519 305 1037 Antisense
ATCGATTCCCTTCTGGAGTACTCGT 428 35 1061 Antisense
GTTCAACTCAAATCAGCATCTATGG 572 445 1087 Antisense
AGAATCGGGTCTAATCTGCCGCGAC 474 75 1233 Antisense
Sequence Source Affymetrix Proprietary Database