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[188869_at] Thioredoxins

Description F56G4.5 /REP_DB=WormBase Gene ID /WP=CE23786 /TR=Q9TW67 /GB=CAB04487.2 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Thioredoxins
Cluster 6grp_highest_10_10 > 27      6grp_high1_10_10 > 61      4grp_highest_8_8 > 18      4grp_high_8_8 > 62      6grp_highest_nonorm > 72      6grp_total > 70      4grp_total > 58      6grp_highest_sub > 03_04      6grp_high1_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 286
1 2 3 4 range
A 364.5
(-0.3)
P 		434.1
(1.7)
P 		480.7
(3)
P 		266.3
(-3)
P 		214
B 333.4
(-1.2)
P 		449.8
(1.2)
P 		534.1
(3)
P 		247.9
(-3)
P 		286
C 358
(-0.6)
P 		419.4
(1.2)
P 		476.5
(3)
P 		281.7
(-3)
P 		195
avr 352
(-0.8) 		434.4
(1.4) 		497.1
(3) 		265.3
(-3) 		232

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 203
1 2 3 4 5 6 range
A 388.5
(0)
P 		349.7
(-1.1)
P 		373.4
(-0.4)
P 		489.7
(3)
P 		316
(-2.1)
P 		286.7
(-3)
P 		203
B 311.1
(-3)
P 		459.2
(2)
P 		487.6
(3)
P 		483.1
(2.8)
P 		425
(0.9)
P 		444.4
(1.5)
P 		177
C 381.1
(-2.1)
P 		377.8
(-2.3)
P 		451.9
(2.3)
P 		463.4
(3)
P 		365.9
(-3)
P 		410.7
(-0.2)
P 		98
avr 360.2
(-3) 		395.6
(-1.2) 		437.6
(0.9) 		478.7
(3) 		369
(-2.6) 		380.6
(-2) 		119
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 127
1 2 3 4 range
A 132.7
(3)
P 		94.2
(0.5)
P 		125.7
(2.6)
P 		39
(-3)
P 		94
B 106.3
(1.5)
P 		111.1
(1.9)
P 		123.8
(3)
P 		52.8
(-3)
P 		71
C 118.5
(0.6)
P 		120.6
(0.7)
P 		166.1
(3)
P 		47.5
(-3)
P 		119
avr 119.2
(1.7) 		108.6
(1.1) 		138.5
(3) 		46.4
(-3) 		92

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 103
1 2 3 4 5 6 range
A 71.6
(-2.8)
P 		124.4
(3)
P 		81.3
(-1.7)
P 		124.2
(3)
P 		95.4
(-0.2)
P 		69.8
(-3)
P 		55
B 108.3
(-3)
P 		152.9
(1.2)
P 		118.4
(-2.1)
P 		127.9
(-1.2)
P 		172.7
(3)
P 		165.7
(2.3)
P 		64
C 141.2
(3)
P 		115.3
(-0.2)
P 		115
(-0.3)
P 		93.2
(-3)
P 		118.4
(0.2)
P 		137.5
(2.5)
P 		48
avr 107
(-2.5) 		130.9
(3) 		104.9
(-3) 		115.1
(-0.6) 		128.8
(2.5) 		124.3
(1.5) 		26
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188869_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1783
Sequence Type Exemplar sequence
Representative Public ID F56G4.5 NCBI
Target Description F56G4.5 /REP_DB=WormBase Gene ID /WP=CE23786 /TR=Q9TW67 /GB=CAB04487.2 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Thioredoxins
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_060512(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060512 NCBI Caenorhabditis elegans F56G4.5 (Thioredoxins) mRNA, complete cds. 11/11 None
GENEFINDER00000010652 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:11392369:11396783:1 11/11 None
F56G4.5.2 ENSEMBL cdna:known chromosome:CEL140:I:11388355:11396783:1 gene:F56G4.5 11/11 None
F56G4.5.1 ENSEMBL cdna:known chromosome:CEL140:I:11388361:11396861:1 gene:F56G4.5 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
chrI:11388292-11396714(+) 100.0 100.0
Public Domain and Genome References
Gene Title Thioredoxins
Ensembl F56G4.5
Entrez Gene 173028 Entrez gene
SwissProt Q9TW67 EMBL-EBI
WormBase CE23786 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1623650_A_AT dm
DROSGENOME1:146663_AT dm
CHICKEN:GGAAFFX.7188.1.S1_S_AT N-glycanase 1 gga
CHICKEN:GGAAFFX.7188.2.S1_S_AT N-glycanase 1 gga
CHICKEN:GGAAFFX.7188.3.S1_S_AT N-glycanase 1 gga
HG-U133_PLUS_2:220742_S_AT N-glycanase 1 hs
HG-U133A:220742_S_AT N-glycanase 1 hs
HG-U133A_2:220742_S_AT N-glycanase 1 hs
HG-U133_PLUS_2:207492_AT N-glycanase 1 hs
HG-U133A:207492_AT N-glycanase 1 hs
HG-U133A_2:207492_AT N-glycanase 1 hs
HU35KSUBC:RC_AA400792_AT N-glycanase 1 hs
HU35KSUBC:RC_AA027038_AT N-glycanase 1 hs
U133_X3P:G8922817_3P_A_AT N-glycanase 1 hs
U133_X3P:G13376672_3P_X_AT N-glycanase 1 hs
U133_X3P:G13376672_3P_AT N-glycanase 1 hs
U133_X3P:207492_3P_AT N-glycanase 1 hs
HG-U95C:62510_S_AT N-glycanase 1 hs
HG-U95C:62511_R_AT N-glycanase 1 hs
HG-U95C:64270_AT N-glycanase 1 hs
HG-U95C:65085_AT N-glycanase 1 hs
HU35KSUBC:RC_D60036_AT N-glycanase 1 hs
HG-U95B:46581_R_AT N-glycanase 1 hs
MG-U74CV2:166312_R_AT N-glycanase 1 mm
MG-U74BV2:111375_AT N-glycanase 1 mm
MOE430A:1417827_AT N-glycanase 1 mm
MOUSE430A_2:1417827_AT N-glycanase 1 mm
MOUSE430_2:1417827_AT N-glycanase 1 mm
MOE430B:1441514_AT N-glycanase 1, mRNA (cDNA clone MGC:35861 IMAGE:5366023) mm
MOUSE430_2:1441514_AT N-glycanase 1, mRNA (cDNA clone MGC:35861 IMAGE:5366023) mm
MOE430B:1440463_AT N-glycanase 1, mRNA (cDNA clone MGC:35861 IMAGE:5366023) mm
MOUSE430_2:1440463_AT N-glycanase 1, mRNA (cDNA clone MGC:35861 IMAGE:5366023) mm
MU19KSUBB:TC32061_AT N-glycanase 1, mRNA (cDNA clone MGC:35861 IMAGE:5366023) mm
MU19KSUBC:TC40079_AT N-glycanase 1, mRNA (cDNA clone MGC:35861 IMAGE:5366023) mm
RG-U34B:RC_AI010637_AT similar to peptide N-glycanase rn
RAE230B:1384205_AT similar to peptide N-glycanase rn
RAT230_2:1384205_AT similar to peptide N-glycanase rn
RAE230B:1396292_AT Similar to peptide N-glycanase rn
RAT230_2:1396292_AT Similar to peptide N-glycanase rn
YEAST_2:1777966_AT Conserved peptide N-glycanase required for deglycosylation of misfolded glycoproteins during proteasome-dependent degradation, localizes to the cytoplasm and nucleus, interacts with the DNA repair protein Rad23p Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6118 electron transport inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5489 electron transporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB57916 Hypothetical protein F56G4.5 [Caenorhabditis elegans] emb|CAB04487.2| Hypothetical protein F56G4.5 [Caenorhabditis elegans] ref|NP_492913.1| F56G4.5 [Caenorhabditis elegans] 0.0
blast AAF74721 PNGase [Caenorhabditis elegans] 0.0
blast CAE63556 Hypothetical protein CBG08042 [Caenorhabditis briggsae] 0.0
blast CAB57916 Hypothetical protein F56G4.5 [Caenorhabditis elegans] emb|CAB04487.2| Hypothetical protein F56G4.5 [Caenorhabditis elegans] ref|NP_492913.1| F56G4.5 [Caenorhabditis elegans] 1.0E-159
Protein Domains
Database ID Description E-Value
Pfam IPR002931 EMBL-EBI Transglutaminase-like domain 1.0E-7
Pfam IPR006588 EMBL-EBI Protein of unknown function PAW 2.8E-38
Pfam IPR006662 EMBL-EBI Thioredoxin type domain 7.4E-28
Pfam IPR006588 EMBL-EBI Protein of unknown function PAW 2.8E-38
Sequence
Target Sequence 
>C. ELEGANS:188869_AT
cgtggtgagcttggggaatccggcccaaagttgctcgcggagcccataaaactggccccg
cccaccggccccgcccagaactacttggaattcaattatgacgtcatcactgacacatac
tctcaaccgcctgaaattggattttcagctcaagcttttgagctggaaaatgtgcagaga
gtcgaggaaaccgactggaatatgacatatttgtgtaggaaacgaggagacgcgccggga
aatatctcctggcattttgatctcaaatcgctcaaaaaatcgattgaaaaaattgaaatt
cgtatggcgggaattcaaaaattcgaaaaaggaaaagcgatggcgattgcctgtctggga
gatagttgtatgagactccccatcgattgctcagcgctaacaattgaagacccgaaaaat
gctgaaattctgaagattactgcaacactatccggcggtgagggcgcaatcggcttccag
caggctcaaattttc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGTGGTGAGCTTGGGGAATCCGGCC 35 245 1267 Antisense
GCGGAGCCCATAAAACTGGCCCCGC 621 289 1303 Antisense
GTCATCACTGACACATACTCTCAAC 156 467 1369 Antisense
CATACTCTCAACCGCCTGAAATTGG 178 215 1382 Antisense
GACGCGCCGGGAAATATCTCCTGGC 507 381 1495 Antisense
TATCTCCTGGCATTTTGATCTCAAA 496 659 1509 Antisense
AGCGATGGCGATTGCCTGTCTGGGA 665 75 1602 Antisense
AGTTGTATGAGACTCCCCATCGATT 593 63 1630 Antisense
CCCATCGATTGCTCAGCGCTAACAA 20 257 1645 Antisense
TTACTGCAACACTATCCGGCGGTGA 665 677 1703 Antisense
CGGCTTCCAGCAGGCTCAAATTTTC 222 243 1737 Antisense
Sequence Source Affymetrix Proprietary Database