[Home] | [Total List]

[187669_at]

Description K12C11.2 /REP_DB=WormBase Gene ID /WP=CE18056 /TR=SW:P55853 /GB=AAK18969.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 96      6grp_high1_10_10 > 78      4grp_highest_8_8 > 09      4grp_high_8_8 > 53      6grp_highest_nonorm > 68      6grp_total > 69      4grp_total > 58      6grp_highest_sub > Cu      6grp_cgc > 49      6grp_high1_sub > Cu      6grp_cgc_sub > Da      6grp_total_sub > Cup      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2138
1 2 3 4 range
A 2498.3
(-1.6)
P 		3535.9
(3)
P 		3440.9
(2.6)
P 		2175.3
(-3)
P 		1361
B 2564.3
(-2.3)
P 		3579.7
(2)
P 		3823.2
(3)
P 		2410.6
(-3)
P 		1413
C 2681
(-0)
P 		3697.7
(3)
P 		3542.8
(2.5)
P 		1685.5
(-3)
P 		2012
avr 2581.2
(-1.1) 		3604.4
(3) 		3602.3
(3) 		2090.5
(-3) 		1514

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1712
1 2 3 4 5 6 range
A 1697.1
(-3)
P 		2039.7
(-1.6)
P 		2375.5
(-0.1)
P 		1989.1
(-1.8)
P 		1942.3
(-2)
P 		3117.6
(3)
P 		1421
B 2587.7
(0.2)
P 		1850.1
(-3)
P 		2094.2
(-1.9)
P 		1889.7
(-2.8)
P 		2299.6
(-1.1)
P 		3233.6
(3)
P 		1384
C 2547.3
(1.6)
P 		1954.7
(-1.1)
P 		1888.2
(-1.4)
P 		1521.5
(-3)
P 		2740.1
(2.5)
P 		2859.7
(3)
P 		1338
avr 2277.4
(-0.7) 		1948.2
(-2.3) 		2119.3
(-1.5) 		1800.1
(-3) 		2327.3
(-0.5) 		3070.3
(3) 		1270
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 951
1 2 3 4 range
A 909.6
(3)
P 		767.5
(1.6)
P 		899.5
(2.9)
P 		318.4
(-3)
P 		591
B 817.7
(1.9)
P 		884.1
(3)
P 		885.9
(3)
P 		513.7
(-3)
P 		372
C 887.5
(0.8)
P 		1063.1
(1.9)
P 		1234.8
(3)
P 		284.2
(-3)
P 		951
avr 871.6
(1.7) 		904.9
(2) 		1006.7
(3) 		372.1
(-3) 		635

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 900
1 2 3 4 5 6 range
A 312.8
(-3)
P 		725.4
(2.5)
P 		517.3
(-0.3)
P 		504.5
(-0.4)
P 		586.1
(0.7)
P 		759
(3)
P 		446
B 900.4
(0.4)
P 		615.8
(-2)
P 		508.5
(-2.9)
P 		500.5
(-3)
P 		934.3
(0.7)
P 		1205.8
(3)
P 		705
C 944.2
(2.9)
P 		596.4
(-0.3)
P 		480.6
(-1.4)
P 		306
(-3)
P 		886.7
(2.3)
P 		957.3
(3)
P 		651
avr 719.1
(0.2) 		645.9
(-0.7) 		502.1
(-2.3) 		437
(-3) 		802.4
(1.1) 		974
(3) 		537
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187669_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28
Sequence Type Exemplar sequence
Representative Public ID K12C11.2 NCBI
Target Description K12C11.2 /REP_DB=WormBase Gene ID /WP=CE18056 /TR=SW:P55853 /GB=AAK18969.1 /SUBMIT=ST.LOUIS /CHR=1 /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_058441(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058441 NCBI Caenorhabditis elegans SUMO (ubiquitin-related) homolog family member (smo-1) (smo-1) mRNA, complete cds. 11/11 None
SNAP00000016384 ENSEMBL cdna:SNAP chromosome:CEL140:I:1340704:1341085:1 11/11 None
GENEFINDER00000016386 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:1340704:1341085:1 11/11 None
K12C11.2 ENSEMBL cdna:known chromosome:CEL140:I:1340679:1341259:1 gene:K12C11.2 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
chrI:1340703-1341085(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol smo-1
Ensembl K12C11.2
Entrez Gene 266820 Entrez gene
SwissProt P55853 EMBL-EBI
WormBase CE18056 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1604938_AT similar to SMT3 suppressor of mif two 3 homolog 1 cfa
CANINE_2:CFA.746.1.S1_S_AT similar to SMT3 suppressor of mif two 3 homolog 1 cfa
CHICKEN:GGA.8466.1.S1_S_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) gga
CHICKEN:GGAAFFX.11573.1.S1_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) gga
HG-U95AV2:155_S_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HC-G110:155_S_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HG-U133A:208761_S_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HG-U133_PLUS_2:208761_S_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HG-U133A_2:208761_S_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HG-FOCUS:208761_S_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HG-U133A:208762_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HG-U133_PLUS_2:208762_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HG-U133A_2:208762_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HG-U133_PLUS_2:211069_S_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HG-U133A:211069_S_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HG-U133A_2:211069_S_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HG-U95AV2:457_S_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HC-G110:457_S_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HUGENEFL:X99586_S_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HUGENEFL:U83117_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HUGENEFL:U67122_S_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HUGENEFL:U61397_S_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
U133_X3P:G1769601_3P_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
U133_X3P:G1762972_3P_S_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HG-U95B:45020_R_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HG-U95C:49551_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HG-U95B:55819_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HU35KSUBB:RC_AA121313_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
HU35KSUBC:RC_N52051_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) hs
MOUSE430A_2:1451005_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) mm
MOUSE430_2:1451005_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) mm
MOE430A:1451005_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) mm
MOUSE430A_2:1438289_A_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) mm
MOUSE430_2:1438289_A_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) mm
MOE430A:1438289_A_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) mm
MOUSE430A_2:1456349_X_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) mm
MOE430A:1456349_X_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) mm
MOUSE430_2:1456349_X_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) mm
MU11KSUBA:AF033353_S_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) mm
MG-U74AV2:101091_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) mm
MOUSE430_2:1444557_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) (Sumo1), mRNA mm
MOE430B:1444557_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) (Sumo1), mRNA mm
RT-U34:AA686579_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) (predicted) rn
RG-U34A:AA686579_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) (predicted) rn
RG-U34B:RC_AA850550_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) (predicted) rn
RG-U34B:RC_AI059527_F_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) (predicted) rn
RG-U34B:RC_AI059527_R_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) (predicted) rn
RG-U34B:RC_AI059527_I_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) (predicted) rn
RAE230A:1399095_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) (predicted) rn
RAT230_2:1399095_AT SMT3 suppressor of mif two 3 homolog 1 (yeast) (predicted) rn
Protein Similarities
Method ID Description E-Value
blast AAK18969 Sumo (ubiquitin-related) homolog protein 1 [Caenorhabditis elegans] emb|CAA67914.1| ubiquitin-like protein [Caenorhabditis elegans] ref|NP_490842.1| SUMO (ubiquitin-related) homolog family member (smo-1) [Caenorhabditis elegans] sp|P55853|SMT3_CAEEL Ubiquitin-like protein SMT3 gb|AAB67608.1| ubiquitin-like protein [Caenorhabditis elegans] 7.0E-46
blast CAE69086 Hypothetical protein CBG15104 [Caenorhabditis briggsae] emb|CAE74544.1| Hypothetical protein CBG22301 [Caenorhabditis briggsae] 1.0E-40
blast XP_392826 PREDICTED: similar to SUMO, small ubiquitin-like modifier, SUMO, small ubiquitin-like modifier SMO-1 (10.2 kD) (smo-1) [Apis mellifera] 3.0E-30
Protein Domains
Database ID Description E-Value
Pfam IPR000626 EMBL-EBI Ubiquitin 2.3E-16
Sequence
Target Sequence 
>C. ELEGANS:187669_AT
gatgcagctcaagcaggcgacaacgccgaatacatcaagatcaaggtcgttggacaggac
agcaacgaagtgcacttccgtgtaaagtatggaacctctatggccaagctgaagaagtcg
tacgctgacagaaccggtgtcgccgtcaacagtcttcgtttcctcttcgacggacgtcgc
atcaacgacgatgacacaccgaagacgctcgagatgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGCAGCTCAAGCAGGCGACAACG 47 413 22 Antisense
GGCGACAACGCCGAATACATCAAGA 104 543 37 Antisense
GATCAAGGTCGTTGGACAGGACAGC 87 423 60 Antisense
CAGGACAGCAACGAAGTGCACTTCC 51 209 76 Antisense
GAAGTGCACTTCCGTGTAAAGTATG 44 335 88 Antisense
GTATGGAACCTCTATGGCCAAGCTG 642 453 108 Antisense
CAAGCTGAAGAAGTCGTACGCTGAC 644 185 126 Antisense
GTACGCTGACAGAACCGGTGTCGCC 165 459 141 Antisense
TTTCCTCTTCGACGGACGTCGCATC 122 667 180 Antisense
GTCGCATCAACGACGATGACACACC 427 475 197 Antisense
GACACACCGAAGACGCTCGAGATGG 83 367 214 Antisense
Sequence Source Affymetrix Proprietary Database