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[188541_s_at]

Description C54H2.5 /REP_DB=WormBase Gene ID /WP=CE06987 /GEN=sft-4 /TR=SW:Q18864 /GB=AAB00591.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 11      6grp_high1_10_10 > 11      4grp_highest_8_8 > 17      4grp_high_8_8 > 61      6grp_highest_nonorm > 67      6grp_total > 13      4grp_total > 58      6grp_cgc > 30      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1759
1 2 3 4 range
A 1938.6
(0.1)
P 		2354.4
(2)
P 		2584.6
(3)
P 		1225.7
(-3)
P 		1359
B 1978.8
(-0.8)
P 		2534
(1.5)
P 		2907.7
(3)
P 		1444.2
(-3)
P 		1464
C 1979.7
(0.2)
P 		2692.9
(3)
P 		2695.4
(3)
P 		1148.4
(-3)
P 		1547
avr 1965.7
(-0.1) 		2527.1
(2.2) 		2729.2
(3) 		1272.8
(-3) 		1456

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 988
1 2 3 4 5 6 range
A 2078.8
(2.8)
P 		2096
(3)
P 		1942.2
(1.2)
P 		1831
(-0.2)
P 		1757.7
(-1)
P 		1593.7
(-3)
P 		502
B 2214.3
(2.9)
P 		2128.8
(2.2)
P 		1868.4
(0.3)
P 		2232.5
(3)
P 		1580.4
(-1.8)
P 		1416.8
(-3)
P 		816
C 2404.3
(3)
P 		2001.8
(0.4)
P 		2101
(1.1)
P 		2098.1
(1)
P 		1592.5
(-2.2)
P 		1464.6
(-3)
P 		940
avr 2232.5
(3) 		2075.5
(1.7) 		1970.5
(0.9) 		2053.9
(1.6) 		1643.5
(-1.8) 		1491.7
(-3) 		741
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 760
1 2 3 4 range
A 705.8
(3)
P 		511.1
(0.8)
P 		675.7
(2.7)
P 		179.4
(-3)
P 		526
B 631
(2.3)
P 		625.9
(2.2)
P 		673.8
(3)
P 		307.8
(-3)
P 		366
C 655.3
(0.7)
P 		774.2
(1.7)
P 		939.4
(3)
P 		193.6
(-3)
P 		746
avr 664
(1.9) 		637.1
(1.6) 		763
(3) 		226.9
(-3) 		536

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 508
1 2 3 4 5 6 range
A 383.2
(-3)
P 		745.4
(3)
P 		423
(-2.3)
P 		464.4
(-1.7)
P 		530.4
(-0.6)
P 		388
(-2.9)
P 		362
B 770.5
(3)
P 		708.6
(1.8)
P 		453.7
(-3)
P 		591.3
(-0.4)
P 		642.1
(0.6)
P 		528.3
(-1.6)
P 		317
C 891.2
(3)
P 		610.8
(-0.6)
P 		534.7
(-1.6)
P 		421.9
(-3)
P 		515.3
(-1.8)
P 		490.3
(-2.1)
P 		469
avr 681.6
(2.8) 		688.3
(3) 		470.5
(-3) 		492.5
(-2.4) 		562.6
(-0.4) 		468.9
(-3) 		219
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188541_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16810
Sequence Type Exemplar sequence
Representative Public ID C54H2.5 NCBI
Target Description C54H2.5 /REP_DB=WormBase Gene ID /WP=CE06987 /GEN=sft-4 /TR=SW:Q18864 /GB=AAB00591.1 /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_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 
SNAP00000031928 ENSEMBL cdna:SNAP chromosome:CEL140:X:5779267:5780670:-1 11/11 None
GENEFINDER00000031933 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:5779267:5780670:-1 11/11 None
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:5779266-5780670(-) 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
SNAP00000031928 5 70-92,97-119,185-207,214-233,248-270
GENEFINDER00000031933 5 70-92,97-119,185-207,214-233,248-270
Sequence
Target Sequence 
>C. ELEGANS:188541_S_AT
gttcatcgcaactttgttcgtcatctacaacttcttcggacagttcatcccggttttaat
gatcatgctccgcaagaaggtgttggtcgcatgtggaattcttgccagcattgtcattct
ccaaaccatcgcttaccatattctctgggacttgaagttcttggccagaaacattgccgt
tggtggaggacttttgctccttcttgccgagacacaggaagagaaggcttccctgttcgc
cggagttccaacaatgggagactcgaacaagccaaaatcgtacatgcttcttgccggacg
tgttcttcttatcttcatgttcatgtctttgatgcattttgagatgtccttcatgcaagt
tttggagattgttgttggatttgctctcatcactctcgtctcaattggttacaagacaaa
gctttccgcgattgttcttgtcatctggctcttcggacttaacctttggcttaatgcttg
gtggaccattccttccgaccgcttctacagagacttcatgaagtacgatttcttccaaac
catgtccgtcattggaggacttctccttgtcattgcctacggaccaggag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTCATCGCAACTTTGTTCGTCATC 167 445 222 Antisense
ACAACTTCTTCGGACAGTTCATCCC 142 113 248 Antisense
GGTGTTGGTCGCATGTGGAATTCTT 321 499 300 Antisense
ATTCTTGCCAGCATTGTCATTCTCC 497 11 319 Antisense
AACCATCGCTTACCATATTCTCTGG 672 147 345 Antisense
GTTCGCCGGAGTTCCAACAATGGGA 298 441 456 Antisense
AAAATCGTACATGCTTCTTGCCGGA 627 131 495 Antisense
GTGTTCTTCTTATCTTCATGTTCAT 398 485 521 Antisense
TCATCACTCTCGTCTCAATTGGTTA 587 619 608 Antisense
CAAAGCTTTCCGCGATTGTTCTTGT 525 191 638 Antisense
CTTGTCATTGCCTACGGACCAGGAG 422 215 787 Antisense
Sequence Source Affymetrix Proprietary Database