[Home] | [Total List]

[183116_s_at]

Description W05H7.3 /REP_DB=WormBase Gene ID /WP=CE14652 /TR=O02173 /GB=AAB52862.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_total > 08      4grp_total > 22      6grp_cgc > 10      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 176
1 2 3 4 range
A 330.8
(0.7)
A 		275.6
(-2.4)
A 		263.8
(-3)
A 		373.4
(3)
A 		110
B 350.3
(3)
A 		235.4
(-1.5)
A 		197.5
(-3)
A 		302.9
(1.1)
A 		153
C 336.1
(1.9)
A 		205.9
(-3)
A 		211.9
(-2.8)
A 		366.8
(3)
A 		161
avr 339.1
(2.6) 		239
(-2.3) 		224.4
(-3) 		347.7
(3) 		123

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 163
1 2 3 4 5 6 range
A 434.2
(3)
P 		303.2
(-1.8)
A 		329.7
(-0.8)
M 		332.1
(-0.8)
M 		309.5
(-1.6)
P 		271.3
(-3)
A 		163
B 427.6
(3)
M 		364.2
(0.4)
A 		343.7
(-0.4)
M 		370.9
(0.7)
M 		288.8
(-2.6)
A 		280
(-3)
P 		148
C 407
(2.6)
P 		355.4
(0.3)
M 		321.1
(-1.2)
A 		417.2
(3)
P 		293.9
(-2.4)
M 		280.3
(-3)
A 		137
avr 422.9
(3) 		340.9
(-0.4) 		331.5
(-0.8) 		373.4
(1) 		297.4
(-2.2) 		277.2
(-3) 		146
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 75
1 2 3 4 range
A 120.5
(3)
A 		59.8
(-2.5)
A 		69
(-1.7)
A 		54.7
(-3)
A 		66
B 111.7
(3)
A 		58.2
(-1.9)
A 		45.8
(-3)
A 		64.5
(-1.3)
A 		66
C 111.3
(3)
A 		59.2
(-3)
A 		73.9
(-1.3)
A 		61.9
(-2.7)
A 		52
avr 114.5
(3) 		59.1
(-3) 		62.9
(-2.6) 		60.4
(-2.9) 		55

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 85
1 2 3 4 5 6 range
A 80
(-1)
P 		107.9
(3)
A 		71.8
(-2.2)
M 		84.2
(-0.4)
M 		93.4
(0.9)
P 		66
(-3)
A 		42
B 148.8
(3)
M 		121.2
(0.5)
A 		83.5
(-3)
M 		98.2
(-1.6)
M 		117.3
(0.1)
A 		104.4
(-1.1)
P 		65
C 150.9
(3)
P 		108.5
(-0.7)
M 		81.7
(-3)
A 		83.9
(-2.8)
P 		95.1
(-1.8)
M 		93.8
(-2)
A 		69
avr 126.6
(3) 		112.5
(1.2) 		79
(-3) 		88.8
(-1.8) 		101.9
(-0.1) 		88.1
(-1.9) 		48
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 183116_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18534
Sequence Type Exemplar sequence
Representative Public ID W05H7.3 NCBI
Target Description W05H7.3 /REP_DB=WormBase Gene ID /WP=CE14652 /TR=O02173 /GB=AAB52862.1 /SUBMIT=ST.LOUIS /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_075871(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075871 NCBI Caenorhabditis elegans human SEDL (spondyloepiphyseal dysplasia tarda) related family member (sedl-1) (sedl-1) mRNA, complete cds. 11/11 None
GENEFINDER00000043345 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:1439357:1440243:-1 11/11 None
W05H7.3 ENSEMBL cdna:known chromosome:CEL140:X:1439256:1440243:-1 gene:W05H7.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000043337 4/11 Cross Hyb Matching Probes None
SNAP00000043338 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:1439356-1440243(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol sedl-1
Ensembl W05H7.3
Entrez Gene 180478 Entrez gene
SwissProt O02173 EMBL-EBI
WormBase CE14652 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:260281_AT expressed protein at
CANINE:1592205_AT similar to Trafficking protein particle complex protein 2 (Sedlin) (MBP-1 interacting protein-2A) (MIP-2A) cfa
CANINE_2:CFA.699.1.S1_AT similar to Trafficking protein particle complex protein 2 (Sedlin) (MBP-1 interacting protein-2A) (MIP-2A) cfa
CANINE_2:CFAAFFX.18270.1.S1_S_AT similar to Trafficking protein particle complex protein 2 (Sedlin) (MBP-1 interacting protein-2A) (MIP-2A) cfa
DROSOPHILA_2:1630543_AT dm
DROSGENOME1:148849_AT dm
CHICKEN:GGAAFFX.12143.1.S1_AT trafficking protein particle complex 2 gga
CHICKEN:GGAAFFX.12143.1.S1_S_AT trafficking protein particle complex 2 gga
HG-U133A:209751_S_AT trafficking protein particle complex 2 hs
HG-U133_PLUS_2:209751_S_AT trafficking protein particle complex 2 hs
HG-U133A_2:209751_S_AT trafficking protein particle complex 2 hs
HG-U133_PLUS_2:219351_AT trafficking protein particle complex 2 hs
HG-U133A:219351_AT trafficking protein particle complex 2 hs
HG-FOCUS:219351_AT trafficking protein particle complex 2 hs
HG-U133A_2:219351_AT trafficking protein particle complex 2 hs
HU35KSUBA:AA418618_AT trafficking protein particle complex 2 hs
HU35KSUBC:RC_AA405588_S_AT trafficking protein particle complex 2 hs
HU35KSUBD:RC_N70373_S_AT trafficking protein particle complex 2 hs
U133_X3P:G9937492_3P_S_AT trafficking protein particle complex 2 hs
U133_X3P:G7657547_3P_AT trafficking protein particle complex 2 hs
HG-U95B:48534_AT trafficking protein particle complex 2 hs
HG-U95C:63729_F_AT trafficking protein particle complex 2 hs
MG-U74BV2:162867_R_AT trafficking protein particle complex 2 mm
MG-U74CV2:167354_R_AT trafficking protein particle complex 2 mm
MG-U74CV2:169395_AT trafficking protein particle complex 2 mm
MOE430A:1432158_A_AT trafficking protein particle complex 2 mm
MOUSE430A_2:1432158_A_AT trafficking protein particle complex 2 mm
MOUSE430_2:1432158_A_AT trafficking protein particle complex 2 mm
RG-U34C:RC_AI177397_AT similar to Sedlin (Trafficking protein particle complex protein 2) rn
RAE230A:1371466_AT similar to Sedlin (Trafficking protein particle complex protein 2) rn
RAT230_2:1371466_AT similar to Sedlin (Trafficking protein particle complex protein 2) rn
YEAST_2:1779512_AT One of 10 subunits of the transport protein particle (TRAPP) complex of the cis-Golgi which mediates vesicle docking and fusion; mutations in the human homolog cause the spondyloepiphyseal dysplasia tarda (SEDL) disorder Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6888 ER to Golgi transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5478 intracellular transporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_508272 human SEDL (spondyloepiphyseal dysplasia tarda) related family member (sedl-1) [Caenorhabditis elegans] gb|AAB52862.1| Human sedl (spondyloepiphyseal dysplasia tarda) related protein 1 [Caenorhabditis elegans] 4.0E-79
blast CAE63678 Hypothetical protein CBG08181 [Caenorhabditis briggsae] 2.0E-73
blast EAA07496 ENSANGP00000022082 [Anopheles gambiae str. PEST] ref|XP_312410.2| ENSANGP00000022082 [Anopheles gambiae str. PEST] 8.0E-43
Protein Domains
Database ID Description E-Value
Pfam IPR006722 EMBL-EBI Sedlin, N-terminal conserved region 6.3E-67
Sequence
Target Sequence 
>C. ELEGANS:183116_S_AT
ggagttctactttgcgatcattggacactgcgaccagccgatcttcgagatggacttccc
ggtcggcgagaagaagacgaaggagtcggaaggcactcggcatctcaatcactacattgg
tcacgccgcgctggatattgtcgacgagcacgcactgaccacttctcagatgtacctcaa
gatggtcgacaagttcaacgagtggtacgtgagcgcgttcgtcaccgccagccgcatccg
cttcatcatgcttcacacacatcgcgccgacgagggaatcaagcaatttttccaggagat
gtacgagacctacatcaagcacgccatgaatccgttctacgaaattgatgacgtcattga
gtcgccggcgtttgagc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGTTCTACTTTGCGATCATTGGA 9 519 24 Antisense
GACCAGCCGATCTTCGAGATGGACT 373 383 55 Antisense
GACTTCCCGGTCGGCGAGAAGAAGA 603 371 76 Antisense
AAGGAGTCGGAAGGCACTCGGCATC 72 161 103 Antisense
TCAATCACTACATTGGTCACGCCGC 457 633 128 Antisense
GCCGCGCTGGATATTGTCGACGAGC 199 285 148 Antisense
TGACCACTTCTCAGATGTACCTCAA 82 571 179 Antisense
ACGAGTGGTACGTGAGCGCGTTCGT 189 93 221 Antisense
ACACATCGCGCCGACGAGGGAATCA 640 109 280 Antisense
TCAAGCACGCCATGAATCCGTTCTA 232 631 338 Antisense
GTCATTGAGTCGCCGGCGTTTGAGC 332 467 376 Antisense
Sequence Source Affymetrix Proprietary Database