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[173418_at]

Description g2440039 /REP_DB=GenBank Identifier /5_PRIME_EXT_ID=C54H2.5 /5_PRIME_EXT_DB=WormBase Gene ID /WB_GENE_ID=C54H2.5 /WP=CE06987 /CHR=X /FEA=Genomic Cluster /GEN=sft-4
Cluster 6grp_highest_10_10 > 10      6grp_high1_10_10 > 07      4grp_highest_8_8 > 10      4grp_high_8_8 > 55      6grp_highest_nonorm > 47      6grp_total > 04      4grp_total > 56      6grp_cgc > 01      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2661
1 2 3 4 range
A 3821.9
(-0.6)
P 		2957.9
(-2.8)
P 		5227.4
(3)
P 		2877.6
(-3)
P 		2350
B 2829.9
(-3)
P 		5050.2
(3)
P 		4638.6
(1.9)
P 		3879.9
(-0.2)
P 		2220
C 3768.5
(-1.8)
P 		5093.5
(1.9)
P 		5490.5
(3)
P 		3350.5
(-3)
P 		2140
avr 3473.4
(-2.6) 		4367.2
(0.4) 		5118.8
(3) 		3369.3
(-3) 		1750

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1592
1 2 3 4 5 6 range
A 4328
(3)
P 		3435.6
(-0.8)
P 		3042.1
(-2.5)
P 		3263.6
(-1.5)
P 		3603.9
(-0.1)
P 		2917.4
(-3)
P 		1411
B 4110
(3)
P 		3881
(2)
P 		2735.7
(-3)
P 		3964.5
(2.4)
P 		3375.5
(-0.2)
P 		3208.1
(-0.9)
P 		1374
C 3879.6
(3)
P 		3566.2
(0.6)
P 		3567.4
(0.6)
P 		3538.8
(0.4)
P 		3093.1
(-3)
P 		3102
(-2.9)
P 		787
avr 4105.9
(3) 		3627.6
(0.2) 		3115.1
(-2.8) 		3589
(-0) 		3357.5
(-1.4) 		3075.8
(-3) 		1030
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1492
1 2 3 4 range
A 1391.6
(3)
P 		642.1
(-1.6)
P 		1366.5
(2.8)
P 		421.2
(-3)
P 		970
B 902.4
(-1.9)
P 		1247.3
(3)
P 		1074.9
(0.5)
P 		826.8
(-3)
P 		421
C 1247.5
(0)
P 		1464.4
(1)
P 		1913.6
(3)
P 		564.9
(-3)
P 		1349
avr 1180.5
(1.1) 		1117.9
(0.6) 		1451.7
(3) 		604.3
(-3) 		847

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 776
1 2 3 4 5 6 range
A 797.8
(-1.5)
P 		1221.9
(3)
P 		662.5
(-3)
P 		827.7
(-1.2)
P 		1087.5
(1.6)
P 		710.3
(-2.5)
P 		559
B 1430.1
(3)
P 		1291.8
(1.9)
P 		664.3
(-3)
P 		1050.1
(0)
P 		1371.4
(2.5)
P 		1196.3
(1.2)
P 		766
C 1438
(3)
P 		1088.2
(0.1)
P 		908
(-1.4)
P 		711.6
(-3)
P 		1000.9
(-0.6)
P 		1038.4
(-0.3)
P 		726
avr 1222
(3) 		1200.6
(2.7) 		744.9
(-3) 		863.1
(-1.5) 		1153.3
(2.1) 		981.7
(-0) 		477
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173418_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.25772
Sequence Type Exemplar sequence
Representative Public ID 2440039 NCBI
Target Description g2440039 /REP_DB=GenBank Identifier /5_PRIME_EXT_ID=C54H2.5 /5_PRIME_EXT_DB=WormBase Gene ID /WB_GENE_ID=C54H2.5 /WP=CE06987 /CHR=X /FEA=Genomic Cluster /GEN=sft-4
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_076569(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076569 NCBI Caenorhabditis elegans SurFeit homolog family member (sft-4) (sft-4) mRNA, complete cds. 11/11 A 
C54H2.5 ENSEMBL cdna:known chromosome:CEL140:X:5778899:5780680:-1 gene:C54H2.5 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
chrX:5778909-5780671(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol sft-4
Ensembl C54H2.5
Entrez Gene 180843 Entrez gene
SwissProt Q18864 EMBL-EBI
WormBase CE06987 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1584242_AT similar to Surfeit locus protein 4 cfa
CANINE_2:CFA.6185.1.S1_AT similar to Surfeit locus protein 4 cfa
CANINE_2:CFAAFFX.30226.1.S1_S_AT similar to Surfeit locus protein 4 cfa
DROSOPHILA_2:1640313_S_AT Surfeit 4 dm
DROSGENOME1:143903_AT Surfeit 4 dm
CHICKEN:GGA.15245.1.A1_AT surfeit 4 gga
CHICKEN:GGA.9460.1.S1_AT surfeit 4 gga
CHICKEN:GGA.9460.3.S1_A_AT surfeit 4 gga
CHICKEN:GGA.9460.2.S1_AT Surfeit 4 gga
HG-U133_PLUS_2:222979_S_AT surfeit 4 hs
HG-U133B:222979_S_AT surfeit 4 hs
HU35KSUBA:AA143019_AT surfeit 4 hs
HU35KSUBA:RC_AA455630_AT surfeit 4 hs
HU35KSUBC:RC_R63879_AT surfeit 4 hs
HU35KSUBC:RC_AA057848_S_AT surfeit 4 hs
HU35KSUBD:RC_AA609996_AT surfeit 4 hs
HU35KSUBD:RC_AA449786_I_AT surfeit 4 hs
U133_X3P:G5531846_3P_A_AT surfeit 4 hs
U133_X3P:HS.284296.0.A3_3P_AT surfeit 4 hs
HG-U133_PLUS_2:222977_AT surfeit 4 hs
HG-U133B:222977_AT surfeit 4 hs
HG-U133_PLUS_2:222978_AT surfeit 4 hs
HG-U133B:222978_AT surfeit 4 hs
HG-U95C:51844_AT surfeit 4 hs
HG-U95C:65743_AT surfeit 4 hs
HU35KSUBD:RC_AA449786_F_AT Surfeit 4 hs
MG-U74AV2:96542_AT surfeit gene 4 mm
MOE430A:1448255_A_AT surfeit gene 4 mm
MOUSE430_2:1448255_A_AT surfeit gene 4 mm
MOUSE430A_2:1448255_A_AT surfeit gene 4 mm
MOUSE430_2:1416213_X_AT surfeit gene 4 mm
MOUSE430A_2:1416213_X_AT surfeit gene 4 mm
MOE430A:1416213_X_AT surfeit gene 4 mm
MU11KSUBA:M62606_S_AT surfeit gene 4 mm
MOE430A:1434589_X_AT surfeit gene 4 mm
MOUSE430A_2:1434589_X_AT surfeit gene 4 mm
MOUSE430_2:1434589_X_AT surfeit gene 4 mm
MOE430A:1436797_A_AT surfeit gene 4 mm
MOUSE430A_2:1436797_A_AT surfeit gene 4 mm
MOUSE430_2:1436797_A_AT surfeit gene 4 mm
MOE430A:1455822_X_AT surfeit gene 4 mm
MOUSE430A_2:1455822_X_AT surfeit gene 4 mm
MOUSE430_2:1455822_X_AT surfeit gene 4 mm
MU19KSUBA:TC24956_AT Surfeit gene 4, mRNA (cDNA clone MGC:18925 IMAGE:3594564) mm
MU19KSUBA:TC24956_G_AT Surfeit gene 4, mRNA (cDNA clone MGC:18925 IMAGE:3594564) mm
MU19KSUBA:TC25528_AT Surfeit gene 4, mRNA (cDNA clone MGC:18925 IMAGE:3594564) mm
MU19KSUBA:TC25528_G_AT Surfeit gene 4, mRNA (cDNA clone MGC:18925 IMAGE:3594564) mm
MU19KSUBC:TC39378_AT Surfeit gene 4, mRNA (cDNA clone MGC:18925 IMAGE:3594564) mm
MU19KSUBC:TC39379_R_AT Surfeit gene 4, mRNA (cDNA clone MGC:18925 IMAGE:3594564) mm
MU19KSUBC:TC39379_S_AT Surfeit gene 4, mRNA (cDNA clone MGC:18925 IMAGE:3594564) mm
MU19KSUBC:TC39380_AT Surfeit gene 4, mRNA (cDNA clone MGC:18925 IMAGE:3594564) mm
YEAST_2:1779576_AT Protein localized to COPII-coated vesicles, involved in vesicle formation and incorporation of specific secretory cargo Sc
Protein Similarities
Method ID Description E-Value
blast NP_508970 SurFeit homolog family member (sft-4) [Caenorhabditis elegans] gb|AAB00591.1| Surfeit homolog protein 4 [Caenorhabditis elegans] sp|Q18864|SURF4_CAEEL Surfeit locus protein 4 homolog 1.0E-153
blast CAA75173 SURF-4 protein [Caenorhabditis elegans] 1.0E-153
blast CAE68799 Hypothetical protein CBG14749 [Caenorhabditis briggsae] 1.0E-152
Protein Domains
Database ID Description E-Value
Pfam IPR002995 EMBL-EBI Surf4 protein 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_508970.1 5 70-92,97-119,185-207,214-233,248-270
C54H2.5 5 70-92,97-119,185-207,214-233,248-270
Sequence
Target Sequence 
>C. ELEGANS:173418_AT
ggtagataccccattaacaccagtacttatacgcatttctatgtcaaatcattgcattac
actcactcaccccgataaatttacctggattgtttatataatttatgaatctgtttcgat
tttttcgatatttcctttaatcaatatatttagagtagaacgttttccctcggtttccca
tccaatgcttcttgtcgtaatgttacaacttcatatctatttccttttatttttttttgt
cattttcttcctttccctaaaacttcatggactatatgggttgttttccaatgaaactct
ccctacaaacttctatttttctcacacgaatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGTAGATACCCCATTAACACCAGTA 59 253 843 Antisense
AACACCAGTACTTATACGCATTTCT 83 135 858 Antisense
GTACTTATACGCATTTCTATGTCAA 96 461 865 Antisense
AAATCATTGCATTACACTCACTCAC 485 117 888 Antisense
CCCATCCAATGCTTCTTGTCGTAAT 703 255 1019 Antisense
GCTTCTTGTCGTAATGTTACAACTT 329 305 1029 Antisense
TCCTTTCCCTAAAACTTCATGGACT 638 589 1091 Antisense
GGACTATATGGGTTGTTTTCCAATG 680 523 1111 Antisense
TTCCAATGAAACTCTCCCTACAAAC 273 699 1128 Antisense
TGAAACTCTCCCTACAAACTTCTAT 650 571 1134 Antisense
AACTTCTATTTTTCTCACACGAATC 544 139 1150 Antisense
Sequence Source GenBank