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[173742_at] TPR domain repeats

Description C49043 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=R05F9.10 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C49043 /WB_GENE_ID=R05F9.10 /WP=CE04813 /CHR=2 /FEA=Genomic Cluster /DEF=TPR domain repeats; C.elegans cDNA clone yk464f2 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 50      6grp_high1_10_10 > 06      4grp_highest_8_8 > 17      4grp_high_8_8 > 61      6grp_highest_nonorm > 47      6grp_total > 24      4grp_total > 59      6grp_highest_sub > De      6grp_cgc > 21      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2911
1 2 3 4 range
A 3788.2
(0.6)
P 		3313.5
(-0.3)
P 		4936.6
(3)
P 		2025.5
(-3)
P 		2911
B 3507.7
(-0.1)
P 		4563.7
(3)
P 		4572.1
(3)
P 		2501.9
(-3)
P 		2070
C 3599.2
(0.1)
P 		4154.4
(1.3)
P 		4936.5
(3)
P 		2139.3
(-3)
P 		2797
avr 3631.7
(0.3) 		4010.5
(1.1) 		4815.1
(3) 		2222.2
(-3) 		2593

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1530
1 2 3 4 5 6 range
A 4056.2
(3)
P 		3751.4
(1.7)
P 		3137.7
(-1)
P 		2684.5
(-3)
P 		3054.1
(-1.4)
P 		3059.1
(-1.4)
P 		1372
B 4088.2
(3)
P 		3577.4
(1)
P 		3552.9
(0.9)
P 		3343
(0)
P 		2579.8
(-3)
P 		2826.8
(-2)
P 		1508
C 4110.2
(3)
P 		3054.4
(-1.8)
P 		3669.5
(1)
P 		2776.7
(-3)
P 		2927.1
(-2.3)
P 		2939.9
(-2.3)
P 		1334
avr 4084.9
(3) 		3461.1
(-0) 		3453.4
(-0.1) 		2934.7
(-2.6) 		2853.7
(-3) 		2941.9
(-2.6) 		1231
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1424
1 2 3 4 range
A 1379.3
(3)
P 		719.3
(-0.7)
P 		1290.5
(2.5)
P 		296.5
(-3)
P 		1083
B 1118.6
(2.9)
P 		1127.1
(3)
P 		1059.5
(2.3)
P 		533.2
(-3)
P 		594
C 1191.4
(0.7)
P 		1194.4
(0.7)
P 		1720.5
(3)
P 		360.7
(-3)
P 		1360
avr 1229.8
(2.2) 		1013.6
(0.9) 		1356.8
(3) 		396.8
(-3) 		960

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 965
1 2 3 4 5 6 range
A 747.7
(-2.4)
P 		1334.2
(3)
P 		683.3
(-3)
P 		680.9
(-3)
P 		921.6
(-0.8)
P 		744.8
(-2.4)
P 		653
B 1422.5
(3)
P 		1190.8
(0.5)
P 		862.8
(-3)
P 		885.4
(-2.8)
P 		1048.2
(-1)
P 		1054.1
(-0.9)
P 		560
C 1523.5
(3)
P 		932
(-0.7)
P 		934
(-0.7)
P 		558.4
(-3)
P 		947.2
(-0.6)
P 		984.1
(-0.4)
P 		965
avr 1231.2
(3) 		1152.3
(2.1) 		826.7
(-1.6) 		708.2
(-3) 		972.3
(0) 		927.7
(-0.5) 		523
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173742_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23704
Sequence Type Exemplar sequence
Representative Public ID C49043 NCBI
Target Description C49043 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=R05F9.10 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C49043 /WB_GENE_ID=R05F9.10 /WP=CE04813 /CHR=2 /FEA=Genomic Cluster /DEF=TPR domain repeats; C.elegans cDNA clone yk464f2 : 5prime end, single read.
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_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
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:4902296-4903778(-) 97.69 100.0
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:173742_AT
aacccaccacaatagataatctcttccgccaatctccttccgcatcacgaatttccattt
cgttatctctctctctctctctttccccttctctcgtctttactttctgctctcatgtga
tttgaaaaagccgaagtcgcttatggttactcgttttttttagtttctctcgcagaattt
ccccttacaatgatgatgttataatcgcccccgattcaagccttatcgaaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACCCACCACAATAGATAATCTCTT 636 145 1013 Antisense
AATAGATAATCTCTTCCGCCAATCT 457 171 1023 Antisense
CTTCCGCATCACGAATTTCCATTTC 671 219 1049 Antisense
GAATTTCCATTTCGTTATCTCTCTC 688 325 1061 Antisense
TTTACTTTCTGCTCTCATGTGATTT 541 673 1111 Antisense
GCCGAAGTCGCTTATGGTTACTCGT 569 283 1142 Antisense
TCGTTTTTTTTAGTTTCTCTCGCAG 274 603 1163 Antisense
TTAGTTTCTCTCGCAGAATTTCCCC 77 667 1172 Antisense
GAATTTCCCCTTACAATGATGATGT 376 325 1187 Antisense
ATGATGATGTTATAATCGCCCCCGA 240 45 1202 Antisense
CCCCCGATTCAAGCCTTATCGAAAT 280 231 1220 Antisense
Sequence Source Affymetrix Proprietary Database