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[192625_s_at] type I membrane protein

Description W02D7.7 /REP_DB=WormBase Gene ID /WP=CE14448 /GEN=sel-9 /TR=O17528 /GB=AAB63937.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=type I membrane protein
Cluster 6grp_highest_10_10 > 27      6grp_high1_10_10 > 61      4grp_highest_8_8 > 12      4grp_high_8_8 > 39      6grp_highest_nonorm > 37      6grp_total > 61      4grp_total > 32      6grp_highest_sub > 03_04      6grp_cgc > 85      6grp_high1_sub > 04      6grp_cgc_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3283
1 2 3 4 range
A 3928.1
(-3)
P 		6139.7
(1.8)
P 		6693.1
(3)
P 		6487.8
(2.6)
P 		2765
B 4041.8
(-3)
P 		6533.1
(1.7)
P 		7210.6
(3)
P 		6339.1
(1.3)
P 		3169
C 4119.6
(-3)
P 		6230.2
(1.9)
P 		6542.1
(2.6)
P 		6725.5
(3)
P 		2606
avr 4029.8
(-3) 		6301
(1.9) 		6815.3
(3) 		6517.5
(2.4) 		2786

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3089
1 2 3 4 5 6 range
A 4185.8
(-2.7)
P 		4544
(-1.8)
P 		6482.1
(3)
P 		6497.9
(3)
P 		4648.1
(-1.5)
P 		4045.5
(-3)
P 		2452
B 5274
(1.1)
P 		3630.8
(-2.5)
P 		5709.4
(2.1)
P 		6129.8
(3)
P 		5209.1
(1)
P 		3408.9
(-3)
P 		2721
C 4446.1
(-1.3)
P 		4002.6
(-3)
P 		5539.5
(3)
P 		5471.5
(2.7)
P 		4933.7
(0.6)
P 		4663.6
(-0.4)
P 		1537
avr 4635.3
(-1.2) 		4059.1
(-2.9) 		5910.3
(2.6) 		6033.1
(3) 		4930.3
(-0.3) 		4039.3
(-3) 		1994
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1330
1 2 3 4 range
A 1430.2
(0.6)
P 		1332.8
(-0.1)
P 		1749.7
(3)
P 		949.7
(-3)
P 		800
B 1288.9
(-3)
P 		1613.5
(2.1)
P 		1670.9
(3)
P 		1350.9
(-2)
P 		382
C 1363.7
(-1.8)
P 		1791.2
(0.4)
P 		2280.1
(3)
P 		1134
(-3)
P 		1146
avr 1360.9
(-1.3) 		1579.2
(0.5) 		1900.2
(3) 		1144.9
(-3) 		755

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1345
1 2 3 4 5 6 range
A 771.6
(-3)
P 		1616.1
(2.8)
P 		1411.7
(1.4)
P 		1648
(3)
P 		1402.6
(1.3)
P 		984.9
(-1.5)
P 		876
B 1835.1
(1.1)
P 		1208.5
(-3)
P 		1386.4
(-1.8)
P 		1623.6
(-0.3)
P 		2116.4
(3)
P 		1271.2
(-2.6)
P 		908
C 1648
(3)
P 		1221.3
(-1.7)
P 		1409.9
(0.4)
P 		1100.3
(-3)
P 		1596.5
(2.4)
P 		1561.2
(2)
P 		548
avr 1418.2
(-1) 		1348.6
(-1.9) 		1402.7
(-1.2) 		1457.3
(-0.4) 		1705.2
(3) 		1272.4
(-3) 		433
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192625_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11340
Sequence Type Exemplar sequence
Representative Public ID W02D7.7 NCBI
Target Description W02D7.7 /REP_DB=WormBase Gene ID /WP=CE14448 /GEN=sel-9 /TR=O17528 /GB=AAB63937.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=type I membrane protein
Cluster Evidence This cluster is supported by a 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_072744(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072744 NCBI Caenorhabditis elegans Suppressor/Enhancer of Lin-12 family member (sel-9) (sel-9) mRNA, complete cds. 11/11 None
SNAP00000029335 ENSEMBL cdna:SNAP chromosome:CEL140:V:8304230:8305155:-1 11/11 None
GENEFINDER00000029343 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8304230:8307059:-1 11/11 None
W02D7.7.2 ENSEMBL cdna:known chromosome:CEL140:V:8304096:8305174:-1 gene:W02D7.7 11/11 None
W02D7.7.1 ENSEMBL cdna:known chromosome:CEL140:V:8304159:8305170:-1 gene:W02D7.7 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:8304230-8305156(-) 100.0 100.0
Public Domain and Genome References
Gene Title type I membrane protein
Gene Symbol sel-9
Ensembl W02D7.7
Entrez Gene 179213 Entrez gene
SwissProt O17528 EMBL-EBI
WormBase CE14448 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1623771_AT dm
DROSGENOME1:152000_AT dm
CHICKEN:GGA.17144.1.S1_AT transmembrane emp24 domain trafficking protein 2 gga
CHICKEN:GGA.17144.1.S1_S_AT transmembrane emp24 domain trafficking protein 2 gga
CHICKEN:GGAAFFX.12277.1.S1_S_AT transmembrane emp24 domain trafficking protein 2 gga
HG-U95AV2:36972_AT transmembrane emp24 domain trafficking protein 2 hs
HG-U133A:204426_AT transmembrane emp24 domain trafficking protein 2 hs
HG-U133_PLUS_2:204426_AT transmembrane emp24 domain trafficking protein 2 hs
HG-U133A_2:204426_AT transmembrane emp24 domain trafficking protein 2 hs
HG-U133A:204427_S_AT transmembrane emp24 domain trafficking protein 2 hs
HG-U133_PLUS_2:204427_S_AT transmembrane emp24 domain trafficking protein 2 hs
HG-FOCUS:204427_S_AT transmembrane emp24 domain trafficking protein 2 hs
HG-U133A_2:204427_S_AT transmembrane emp24 domain trafficking protein 2 hs
PLASMODIUM_ANOPHELES:200087_S_AT transmembrane emp24 domain trafficking protein 2 hs
HG-U133_PLUS_2:200087_S_AT transmembrane emp24 domain trafficking protein 2 hs
HG-U133A_2:200087_S_AT transmembrane emp24 domain trafficking protein 2 hs
HG-FOCUS:200087_S_AT transmembrane emp24 domain trafficking protein 2 hs
HG-U133B:200087_S_AT transmembrane emp24 domain trafficking protein 2 hs
HG-U133A:200087_S_AT transmembrane emp24 domain trafficking protein 2 hs
U133_X3P:200087_S_AT transmembrane emp24 domain trafficking protein 2 hs
HUGENEFL:X92098_AT transmembrane emp24 domain trafficking protein 2 hs
U133_X3P:G5803148_3P_S_AT transmembrane emp24 domain trafficking protein 2 hs
U133_X3P:HS.75914.0.S1_3P_A_AT transmembrane emp24 domain trafficking protein 2 hs
HG-U95C:61074_AT transmembrane emp24 domain trafficking protein 2 hs
HG-U95D:75058_F_AT transmembrane emp24 domain trafficking protein 2 hs
HU35KSUBC:RC_H92073_AT Transmembrane emp24 domain trafficking protein 2 hs
MG-U74AV2:93818_G_AT transmembrane emp24 domain trafficking protein 2 mm
MOUSE430_2:1431036_A_AT transmembrane emp24 domain trafficking protein 2 mm
MOE430A:1431036_A_AT transmembrane emp24 domain trafficking protein 2 mm
MOUSE430A_2:1431036_A_AT transmembrane emp24 domain trafficking protein 2 mm
MU11KSUBA:AA538556_G_AT transmembrane emp24 domain trafficking protein 2 mm
MU11KSUBA:AA538556_AT transmembrane emp24 domain trafficking protein 2 mm
MG-U74AV2:93819_AT transmembrane emp24 domain trafficking protein 2 mm
MG-U74AV2:93817_AT transmembrane emp24 domain trafficking protein 2 mm
MOE430A:1420868_S_AT transmembrane emp24 domain trafficking protein 2 mm
MOUSE430A_2:1420868_S_AT transmembrane emp24 domain trafficking protein 2 mm
MOUSE430_2:1420868_S_AT transmembrane emp24 domain trafficking protein 2 mm
MOE430A:1436452_X_AT transmembrane emp24 domain trafficking protein 2 mm
MOUSE430A_2:1436452_X_AT transmembrane emp24 domain trafficking protein 2 mm
MOUSE430_2:1436452_X_AT transmembrane emp24 domain trafficking protein 2 mm
MOE430A:1455968_X_AT transmembrane emp24 domain trafficking protein 2 mm
MOUSE430A_2:1455968_X_AT transmembrane emp24 domain trafficking protein 2 mm
MOUSE430_2:1455968_X_AT transmembrane emp24 domain trafficking protein 2 mm
MOE430A:1420867_AT transmembrane emp24 domain trafficking protein 2 mm
MOUSE430A_2:1420867_AT transmembrane emp24 domain trafficking protein 2 mm
MOUSE430_2:1420867_AT transmembrane emp24 domain trafficking protein 2 mm
MOE430A:1436451_A_AT transmembrane emp24 domain trafficking protein 2 mm
MOUSE430A_2:1436451_A_AT transmembrane emp24 domain trafficking protein 2 mm
MOUSE430_2:1436451_A_AT transmembrane emp24 domain trafficking protein 2 mm
MG-U74BV2:114616_AT Transmembrane emp24 domain trafficking protein 2 (Tmed2), mRNA mm
MOE430B:1460128_AT Transmembrane emp24 domain trafficking protein 2 (Tmed2), mRNA mm
MOUSE430_2:1460128_AT Transmembrane emp24 domain trafficking protein 2 (Tmed2), mRNA mm
MU19KSUBC:TC35860_AT Transmembrane emp24 domain trafficking protein 2 (Tmed2), mRNA mm
RG-U34A:RC_AA866460_AT coated vesicle membrane protein rn
RG-U34A:X92097_AT coated vesicle membrane protein rn
RAE230A:1389940_AT coated vesicle membrane protein rn
RAT230_2:1389940_AT coated vesicle membrane protein rn
RAE230A:1398824_AT coated vesicle membrane protein rn
RAT230_2:1398824_AT coated vesicle membrane protein rn
RAE230A:1390150_AT Coated vesicle membrane protein rn
RAT230_2:1390150_AT Coated vesicle membrane protein rn
RG-U34C:RC_AI102395_AT Coated vesicle membrane protein rn
YEAST_2:1777543_AT Integral membrane component of endoplasmic reticulum-derived COPII-coated vesicles, which function in ER to Golgi transport Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6886 intracellular protein transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8320 protein carrier activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_505145 Suppressor/Enhancer of Lin-12 family member (sel-9) [Caenorhabditis elegans] gb|AAB63937.1| Suppressor/enhancer of lin-12 protein 9 [Caenorhabditis elegans] sp|O17528|SEL9_CAEEL Suppressor/enhancer of lin-12 protein 9 precursor 1.0E-102
blast CAE66079 Hypothetical protein CBG11296 [Caenorhabditis briggsae] 1.0E-101
blast CAE66079 Hypothetical protein CBG11296 [Caenorhabditis briggsae] 1.0E-100
Protein Domains
Database ID Description E-Value
Pfam IPR000348 EMBL-EBI emp24/gp25L/p24 2.4E-93
Pfam IPR000348 EMBL-EBI emp24/gp25L/p24 2.4E-93
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_505145.1 2 4-23,171-193
W02D7.7.2 2 4-23,171-193
W02D7.7.1 2 4-23,171-193
SNAP00000029335 2 4-23,171-193
GENEFINDER00000029343 2 69-88,236-258
Sequence
Target Sequence 
>C. ELEGANS:192625_S_AT
ccgcttcatacttcattcacgttgatgccaatgaggagcaatgctttttcgatcgattaa
cgtcaggaaccaaaatgggtctgatgttcgaagttgctgaaggaggattcctcgatattg
atgttaagattaccggaccagacaataaagaaatctataaaggagaacgtgaatcatcag
gaaagttcacttttgctgcccatatggatggagtctacacttattgtttcggaaacaaga
tgagcacgatgacgccgaaagctgtaatgttcaccgtcgaaatcactgagccacatcagc
aagcaccaggagcagccgctaatcaagatgctgccgataatgccaagcttgaagaaatgg
ttcgtgagctatcctctgctttgatgtcagtgaaacacgagcaagaatacatggaagtta
gagagcgtgttcacagaaatatcaatgaaaacacgaactctcgcgtcgttatgtgggccg
ctttcgaggctttcgtattgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCGCTTCATACTTCATTCACGTTGA 482 263 59 Antisense
TTCACTTTTGCTGCCCATATGGATG 349 687 244 Antisense
AGATGAGCACGATGACGCCGAAAGC 1 67 296 Antisense
GCCGAAAGCTGTAATGTTCACCGTC 451 283 312 Antisense
GTTCACCGTCGAAATCACTGAGCCA 91 445 327 Antisense
ACTGAGCCACATCAGCAAGCACCAG 550 97 343 Antisense
GATGCTGCCGATAATGCCAAGCTTG 448 413 385 Antisense
AAATGGTTCGTGAGCTATCCTCTGC 332 121 413 Antisense
GCTATCCTCTGCTTTGATGTCAGTG 578 303 426 Antisense
AAACACGAACTCTCGCGTCGTTATG 250 125 507 Antisense
GCCGCTTTCGAGGCTTTCGTATTGG 164 283 535 Antisense
Sequence Source Affymetrix Proprietary Database