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[192971_s_at] Tub family protein tub-1

Description F10B5.4 /REP_DB=WormBase Gene ID /WP=CE24892 /GEN=tub-1 /TR=SW:Q09306 /GB=CAB61010.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Tub family protein tub-1
Cluster 4grp_high_8_8 > 09      6grp_total > 34      4grp_total > 29      6grp_cgc > 44      6grp_cgc_sub > 02      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 72
1 2 3 4 range
A 78.9
(0.1)
P 		78.6
(-0)
A 		68.8
(-3)
P 		88.5
(3)
A 		20
B 105.3
(3)
P 		61.5
(-1.1)
P 		40.9
(-3)
A 		88
(1.4)
P 		64
C 92.9
(1.2)
P 		81.8
(0.2)
P 		45.9
(-3)
M 		113.2
(3)
A 		67
avr 92.4
(2.4) 		74
(-0) 		51.9
(-3) 		96.6
(3) 		45

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 69
1 2 3 4 5 6 range
A 30.3
(-3)
A 		33.1
(-2.6)
A 		64
(2.1)
M 		45.4
(-0.7)
A 		70
(3)
A 		50.2
(0)
A 		40
B 74.3
(3)
P 		68.7
(2)
M 		65.6
(1.4)
A 		46.5
(-2.1)
A 		41.3
(-3)
P 		57.9
(0)
P 		33
C 87.3
(2.2)
P 		96.8
(3)
A 		81.3
(1.6)
P 		35.5
(-2.4)
A 		28.2
(-3)
A 		39.1
(-2)
A 		69
avr 64
(1.6) 		66.2
(2.1) 		70.3
(3) 		42.5
(-3) 		46.5
(-2.1) 		49.1
(-1.6) 		28
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 24
1 2 3 4 range
A 28.7
(3)
P 		17.1
(-1.4)
A 		18
(-1.1)
P 		13
(-3)
A 		16
B 33.6
(3)
P 		15.2
(-1.6)
P 		9.5
(-3)
A 		18.7
(-0.7)
P 		24
C 30.8
(3)
P 		23.5
(0)
P 		16
(-3)
M 		19.1
(-1.7)
A 		15
avr 31
(3) 		18.6
(-1.5) 		14.5
(-3) 		16.9
(-2.1) 		17

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 27
1 2 3 4 5 6 range
A 5.6
(-3)
A 		11.8
(-0.6)
A 		13.9
(0.2)
M 		11.5
(-0.7)
A 		21.1
(3)
A 		12.2
(-0.4)
A 		16
B 25.9
(3)
P 		22.9
(1.7)
M 		15.9
(-1.4)
A 		12.3
(-3)
A 		16.8
(-1)
P 		21.6
(1.1)
P 		14
C 32.4
(3)
P 		29.5
(2.3)
A 		20.7
(0.2)
P 		7.1
(-3)
A 		9.1
(-2.5)
A 		13.1
(-1.6)
A 		25
avr 21.3
(2.9) 		21.4
(3) 		16.8
(0.5) 		10.3
(-3) 		15.7
(-0.1) 		15.6
(-0.1) 		11
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192971_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3719
Sequence Type Exemplar sequence
Representative Public ID F10B5.4 NCBI
Target Description F10B5.4 /REP_DB=WormBase Gene ID /WP=CE24892 /GEN=tub-1 /TR=SW:Q09306 /GB=CAB61010.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Tub family protein tub-1
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_063309(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063309 NCBI Caenorhabditis elegans TUBby-related family member (tub-1) (tub-1) mRNA, complete cds. 11/11 None
SNAP00000014816 ENSEMBL cdna:SNAP chromosome:CEL140:II:8154692:8156106:-1 11/11 None
GENEFINDER00000014823 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:8154426:8156858:-1 11/11 None
F10B5.4 ENSEMBL cdna:known chromosome:CEL140:II:8154017:8156858:-1 gene:F10B5.4 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
chrII:8154688-8156801(-) 100.0 100.0
Public Domain and Genome References
Gene Title Tub family protein tub-1
Gene Symbol tub-1
Ensembl F10B5.4
Entrez Gene 174312 Entrez gene
SwissProt Q09306 EMBL-EBI
WormBase CE29091 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:260588_AT F-box family protein / tubby family protein (TULP7) at
CANINE_2:CFAAFFX.11241.1.S1_AT similar to tubby isoform a cfa
DROSOPHILA_2:1639525_AT king tubby dm
DROSGENOME1:151977_AT king tubby dm
CHICKEN:GGA.12701.1.S1_AT similar to TUBBY PROTEIN HOMOLOG gga
CHICKEN:GGA.12701.1.S1_S_AT similar to TUBBY PROTEIN HOMOLOG gga
CHICKEN:GGAAFFX.26682.1.S1_S_AT similar to TUBBY PROTEIN HOMOLOG gga
HG-U95AV2:34599_AT tubby homolog (mouse) hs
HG-U133_PLUS_2:210737_AT tubby homolog (mouse) hs
HG-U133A:210737_AT tubby homolog (mouse) hs
HG-U133A_2:210737_AT tubby homolog (mouse) hs
HG-U133_PLUS_2:208431_S_AT tubby homolog (mouse) hs
HG-U133A:208431_S_AT tubby homolog (mouse) hs
HG-FOCUS:208431_S_AT tubby homolog (mouse) hs
HG-U133A_2:208431_S_AT tubby homolog (mouse) hs
HUGENEFL:U82467_AT tubby homolog (mouse) hs
HUGENEFL:U54644_S_AT tubby homolog (mouse) hs
U133_X3P:G4507726_3P_X_AT tubby homolog (mouse) hs
U133_X3P:G4507726_3P_A_AT tubby homolog (mouse) hs
U133_X3P:G2072159_3P_AT tubby homolog (mouse) hs
U133_X3P:HS.128751.0.S2_3P_AT tubby homolog (mouse) hs
U133_X3P:HS.128751.0.S1_3P_AT tubby homolog (mouse) hs
HG-U133_PLUS_2:228882_AT tubby homolog (mouse) hs
HG-U133B:228882_AT tubby homolog (mouse) hs
HG-U133_PLUS_2:228883_AT tubby homolog (mouse) hs
HG-U133B:228883_AT tubby homolog (mouse) hs
HG-U95AV2:34600_S_AT tubby homolog (mouse) hs
HG-U95E:87807_S_AT tubby homolog (mouse) hs
HG-U95E:87810_R_AT tubby homolog (mouse) hs
HG-U133_PLUS_2:217396_AT Tubby homolog (mouse) hs
HG-U133A_2:217396_AT Tubby homolog (mouse) hs
HG-U133A:217396_AT Tubby homolog (mouse) hs
U133_X3P:HS.274560.0.S1_3P_AT Tubby homolog (mouse) hs
HG-U95E:74130_AT Tubby homolog (mouse) hs
HG-U95D:85245_AT Tubby homolog (mouse) hs
HG-U95D:73762_AT Tubby homolog (mouse) hs
MU11KSUBA:U52433_S_AT tubby candidate gene mm
MG-U74AV2:98806_S_AT tubby candidate gene mm
MG-U74AV2:98805_AT tubby candidate gene mm
MG-U74BV2:162597_AT tubby candidate gene mm
MOE430A:1450041_A_AT tubby candidate gene mm
MOUSE430A_2:1450041_A_AT tubby candidate gene mm
MOUSE430_2:1450041_A_AT tubby candidate gene mm
MOE430A:1420925_AT tubby candidate gene mm
MOUSE430A_2:1420925_AT tubby candidate gene mm
MOUSE430_2:1420925_AT tubby candidate gene mm
MG-U74CV2:140886_AT Tubby candidate gene (Tub), mRNA mm
Protein Similarities
Method ID Description E-Value
blast CAB61010 Hypothetical protein F10B5.4 [Caenorhabditis elegans] ref|NP_495710.1| TUBby-related family member (tub-1) [Caenorhabditis elegans] gb|AAD33902.1| tubby homolog [Caenorhabditis elegans] sp|Q09306|TUB1_CAEEL Tubby protein homolog 0.0
blast T20691 hypothetical protein F10B5.4 - Caenorhabditis elegans 0.0
blast CAE57730 Hypothetical protein CBG00741 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000007 EMBL-EBI Tubby 1.0E-126
Pfam IPR000007 EMBL-EBI Tubby 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:192971_S_AT
aggtcaaacgctctaggaactcaattcacagtatatgattctggacaaaatccaaagaaa
actacaaatcacgcggctatccgccaagagcttgctgccgttatttatgaaacaaatgtt
ctcggatttaaaggccctcgaaaaatgacaattgttatgcctggaattgagcctccgact
gaaaatagaccggcagttcgttgcccggttcgtccaattcaggacaaacacacattactc
gagagatatagactcaatgatttggattctctgaaaatattatccaataagagtccacaa
tggaacgatgaaactcaatcatacgttctaaacttccatggaagagtcactcaagcatct
gttaaaaactttcaaataattcatcaaagttctcctgaatatatcgttatgcagtttggt
agaatttcagatgatgagttcacaatggactttaggtatccactgtcggcggttcaagca
tttgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGGTCAAACGCTCTAGGAACTCAAT 130 57 712 Antisense
GAAAACTACAAATCACGCGGCTATC 343 355 768 Antisense
GAGCTTGCTGCCGTTATTTATGAAA 294 387 799 Antisense
ATGTTCTCGGATTTAAAGGCCCTCG 374 47 827 Antisense
TTATGCCTGGAATTGAGCCTCCGAC 145 681 866 Antisense
TAGACCGGCAGTTCGTTGCCCGGTT 54 649 897 Antisense
TGCCCGGTTCGTCCAATTCAGGACA 156 585 913 Antisense
TCAGGACAAACACACATTACTCGAG 634 621 930 Antisense
GAAGAGTCACTCAAGCATCTGTTAA 327 339 1052 Antisense
GGACTTTAGGTATCCACTGTCGGCG 49 503 1158 Antisense
CACTGTCGGCGGTTCAAGCATTTGG 164 199 1172 Antisense
Sequence Source Affymetrix Proprietary Database