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[189923_s_at] TPR domain repeats

Description R05F9.10 /REP_DB=WormBase Gene ID /WP=CE04813 /TR=Q21746 /GB=AAA83170.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=TPR domain repeats
Cluster 6grp_highest_10_10 > 63      6grp_high1_10_10 > 54      4grp_highest_8_8 > 16      4grp_high_8_8 > 60      6grp_highest_nonorm > 67      6grp_total > 45      4grp_total > 59      6grp_highest_sub > Cu      6grp_cgc > 35      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2357
1 2 3 4 range
A 2450.3
(1)
P 		2536.2
(1.3)
P 		3197
(3)
P 		925.6
(-3)
P 		2271
B 2086
(-0.6)
P 		3035.9
(3)
P 		2165.2
(-0.3)
P 		1465.7
(-3)
P 		1570
C 2677.9
(1.4)
P 		2426.5
(0.8)
P 		3282.9
(3)
P 		983.5
(-3)
P 		2299
avr 2404.7
(1.4) 		2666.2
(2.3) 		2881.7
(3) 		1124.9
(-3) 		1757

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1246
1 2 3 4 5 6 range
A 2124.4
(3)
P 		2106.6
(2.9)
P 		1932.6
(1.5)
P 		1331
(-3)
P 		1373.6
(-2.7)
P 		2060.2
(2.5)
P 		793
B 2062
(-0.2)
P 		1929.6
(-1)
P 		2576.5
(3)
P 		2069.8
(-0.1)
P 		1603.4
(-3)
P 		1853.3
(-1.5)
P 		973
C 2381.1
(3)
P 		2222.1
(2)
P 		2284.6
(2.4)
P 		1661.3
(-1.7)
P 		1457.7
(-3)
P 		2078.7
(1)
P 		923
avr 2189.2
(2.4) 		2086.1
(1.6) 		2264.6
(3) 		1687.4
(-1.4) 		1478.2
(-3) 		1997.4
(1) 		786
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1009
1 2 3 4 range
A 892.2
(3)
P 		550.6
(0.3)
P 		835.8
(2.6)
P 		135.5
(-3)
P 		757
B 665.2
(1.8)
P 		749.8
(3)
P 		501.7
(-0.4)
P 		312.3
(-3)
P 		438
C 886.5
(1.4)
P 		697.6
(0.3)
P 		1144.2
(3)
P 		165.8
(-3)
P 		978
avr 814.6
(2.9) 		666
(1.4) 		827.2
(3) 		204.5
(-3) 		623

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 549
1 2 3 4 5 6 range
A 391.6
(-2.2)
P 		749.2
(3)
P 		420.9
(-1.8)
P 		337.6
(-3)
P 		414.5
(-1.9)
P 		501.6
(-0.6)
P 		412
B 717.5
(3)
P 		642.3
(0.3)
P 		625.7
(-0.3)
P 		548.2
(-3)
P 		651.4
(0.7)
P 		691.1
(2.1)
P 		169
C 882.6
(3)
P 		678
(0.8)
P 		581.5
(-0.3)
P 		334.1
(-3)
P 		471.7
(-1.5)
P 		695.9
(1)
P 		549
avr 663.9
(2.5) 		689.8
(3) 		542.7
(-0.1) 		406.6
(-3) 		512.5
(-0.8) 		629.5
(1.7) 		283
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189923_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4143
Sequence Type Exemplar sequence
Representative Public ID R05F9.10 NCBI
Target Description R05F9.10 /REP_DB=WormBase Gene ID /WP=CE04813 /TR=Q21746 /GB=AAA83170.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=TPR domain repeats
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_062492(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062492 NCBI Caenorhabditis elegans R05F9.10 (R05F9.10) mRNA, complete cds. 11/11 None
SNAP00000043871 ENSEMBL cdna:SNAP chromosome:CEL140:II:4902582:4903779:-1 11/11 None
GENEFINDER00000043884 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:4902582:4903779:-1 11/11 None
R05F9.10 ENSEMBL cdna:known chromosome:CEL140:II:4902283:4903782:-1 gene:R05F9.10 11/11 A 
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
chrII:4902579-4903777(-) 100.0 100.0
Public Domain and Genome References
Gene Title TPR domain repeats
Gene Symbol sgt-1
Ensembl R05F9.10
Entrez Gene 173846 Entrez gene
SwissProt Q21746 EMBL-EBI
WormBase CE04813 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFA.18335.1.S1_S_AT similar to small glutamine-rich tetratricopeptide cfa
CHICKEN:GGA.2969.1.S1_S_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha gga
CHICKEN:GGAAFFX.13121.1.S1_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha gga
HG-U133_PLUS_2:201396_S_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha hs
HG-FOCUS:201396_S_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha hs
HG-U133A:201396_S_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha hs
HG-U133A_2:201396_S_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha hs
HU35KSUBA:RC_AA463886_S_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha hs
HU35KSUBD:RC_AA431096_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha hs
HU35KSUBD:RC_Z38806_F_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha hs
U133_X3P:G13259553_3P_A_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha hs
HG-U95AV2:32816_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha hs
MOUSE430_2:1451067_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha mm
MOE430A:1451067_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha mm
MOUSE430A_2:1451067_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha mm
MU11KSUBA:C78620_RC_S_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha mm
MG-U74AV2:96872_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha mm
MG-U74BV2:116180_AT Small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha (Sgta), mRNA mm
MU19KSUBA:TC20967_AT Small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha (Sgta), mRNA mm
MU19KSUBA:TC21082_AT Small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha (Sgta), mRNA mm
MU19KSUBA:TC21082_G_AT Small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha (Sgta), mRNA mm
MU19KSUBC:TC36388_AT Small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha (Sgta), mRNA mm
MU19KSUBC:TC36388_G_AT Small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha (Sgta), mRNA mm
RG-U34A:AJ222724_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha rn
RG-U34C:RC_AI228646_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha rn
RAE230A:1388467_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha rn
RAT230_2:1388467_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha rn
RAE230A:1368444_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha rn
RAT230_2:1368444_AT small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha rn
Protein Similarities
Method ID Description E-Value
blast NP_494893 R05F9.10 [Caenorhabditis elegans] gb|AAA83170.1| Hypothetical protein R05F9.10 [Caenorhabditis elegans] 1.0E-141
blast CAE58997 Hypothetical protein CBG02270 [Caenorhabditis briggsae] 1.0E-121
blast AAH68804 MGC81394 protein [Xenopus laevis] 4.0E-44
Protein Domains
Database ID Description E-Value
Pfam IPR001440 EMBL-EBI TPR repeat 0.33
Pfam IPR001440 EMBL-EBI TPR repeat 2.6E-10
Pfam IPR001440 EMBL-EBI TPR repeat 9.0E-11
Sequence
Target Sequence 
>C. ELEGANS:189923_S_AT
agatccagtctacttctgtaaccgcgctgctgcttattgccgcctggaacaatatgattt
ggccatccaagattgtcgtacagctcttgcccttgatccatcttactcaaaagcttgggg
aagaatgggtcttgcatattcttgccaaaacagatatgagcatgccgctgaggcatacaa
gaaggctttggagcttgaaccaaatcaagagagttacaagaataatttgaaaattgctga
agacaaattgaaggagctggaaagctcgcgaccggcaccaggtgccaatccattggctgg
gcttttgggagccatgggaggaggaccgggaggaatgccggctatgccaggaatgccaaa
catgcaaaaccttatgaacgagccaggacttatgcaagctgcttcacagatgatgagcga
tccagcactttctgatatgttcaacaacatgatgtctggaaatggatcaatcgctgattt
gatggctgctggccagcaaatggctgctcgcatgcaagagacca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGATCCAGTCTACTTCTGTAACCGC 478 67 420 Antisense
GGCCATCCAAGATTGTCGTACAGCT 400 541 480 Antisense
TGCCCTTGATCCATCTTACTCAAAA 324 585 507 Antisense
GGGTCTTGCATATTCTTGCCAAAAC 509 497 546 Antisense
GCGACCGGCACCAGGTGCCAATCCA 588 287 687 Antisense
GCCAATCCATTGGCTGGGCTTTTGG 613 277 703 Antisense
GAGCCAGGACTTATGCAAGCTGCTT 503 385 799 Antisense
GAGCGATCCAGCACTTTCTGATATG 677 385 834 Antisense
AATCGCTGATTTGATGGCTGCTGGC 286 169 888 Antisense
GGCTGCTGGCCAGCAAATGGCTGCT 619 539 903 Antisense
ATGGCTGCTCGCATGCAAGAGACCA 622 51 919 Antisense
Sequence Source Affymetrix Proprietary Database