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[174982_at]

Description CEK124C4R_rc /REP_DB=TREMBL Accession /GB=D66831 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk124c4 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 21      6grp_high1_10_10 > 11      4grp_highest_8_8 > 25      4grp_high_8_8 > 60      6grp_highest_nonorm > 70      6grp_total > 23      4grp_total > 60      6grp_highest_sub > De      6grp_cgc > 30      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 507
1 2 3 4 range
A 609.1
(2.2)
P 		448.9
(0)
P 		665.6
(3)
P 		226.6
(-3)
P 		439
B 511.6
(1.3)
P 		619.1
(3)
P 		569.1
(2.2)
P 		233.7
(-3)
P 		385
C 501.6
(0.8)
P 		578.1
(1.7)
P 		690.2
(3)
P 		182.8
(-3)
P 		507
avr 540.8
(1.6) 		548.7
(1.7) 		641.6
(3) 		214.4
(-3) 		427

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 355
1 2 3 4 5 6 range
A 405.8
(0.5)
P 		509.2
(3)
P 		363.6
(-0.5)
P 		295
(-2.2)
P 		307.5
(-1.9)
P 		261.3
(-3)
P 		248
B 441.4
(3)
P 		335.5
(0.6)
P 		192.7
(-2.7)
P 		389.6
(1.8)
P 		229.3
(-1.9)
P 		181.4
(-3)
P 		260
C 519.5
(2.9)
P 		289
(-1)
P 		528.3
(3)
P 		335.4
(-0.3)
P 		240.1
(-1.9)
P 		173
(-3)
P 		355
avr 455.6
(3) 		377.9
(1.1) 		361.5
(0.7) 		340
(0.2) 		259
(-1.7) 		205.2
(-3) 		250
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 210
1 2 3 4 range
A 221.8
(3)
P 		97.5
(-1)
P 		174
(1.5)
P 		33.2
(-3)
P 		189
B 163.2
(3)
P 		152.9
(2.5)
P 		131.9
(1.3)
P 		49.8
(-3)
P 		113
C 166.1
(0.9)
P 		166.2
(0.9)
P 		240.5
(3)
P 		30.8
(-3)
P 		210
avr 183.7
(3) 		138.9
(1.2) 		182.1
(2.9) 		37.9
(-3) 		146

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 146
1 2 3 4 5 6 range
A 74.8
(-2.4)
P 		181.1
(3)
P 		79.2
(-2.2)
P 		74.8
(-2.4)
P 		92.8
(-1.5)
P 		63.6
(-3)
P 		118
B 153.6
(3)
P 		111.7
(0.6)
P 		46.8
(-3)
P 		103.2
(0.2)
P 		93.2
(-0.4)
P 		67.7
(-1.8)
P 		107
C 192.5
(3)
P 		88.2
(-1.6)
P 		134.4
(0.4)
P 		67.5
(-2.6)
P 		77.7
(-2.1)
P 		57.9
(-3)
P 		135
avr 140.3
(3) 		127
(2) 		86.8
(-1.2) 		81.8
(-1.5) 		87.9
(-1.1) 		63.1
(-3) 		77
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174982_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20717
Sequence Type Exemplar sequence
Representative Public ID CEK124C4R NCBI
Target Description CEK124C4R_rc /REP_DB=TREMBL Accession /GB=D66831 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk124c4 : 3prime 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_061879(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061879 NCBI Caenorhabditis elegans F53G2.7 (F53G2.7) mRNA, complete cds. 11/11 None
F53G2.7.2 ENSEMBL cdna:known chromosome:CEL140:II:2473523:2478644:-1 gene:F53G2.7 11/11 None
F53G2.7.1 ENSEMBL cdna:known chromosome:CEL140:II:2473523:2479091:-1 gene:F53G2.7 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:2473549-2473873(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol mnat-1
Ensembl F53G2.7
Entrez Gene 173602 Entrez gene
SwissProt O17245 EMBL-EBI
WormBase CE31957 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1605161_AT similar to CDK-activating kinase assembly factor MAT1 (RING finger protein MAT1) (Menage a trois) (CDK7/cyclin H assembly factor) (p36) (p35) (Cyclin G1 interacting protein) (RING finger protein 66) cfa
CANINE:1598494_AT similar to CDK-activating kinase assembly factor MAT1 (RING finger protein MAT1) (Menage a trois) (CDK7/cyclin H assembly factor) (p36) (p35) (Cyclin G1 interacting protein) (RING finger protein 66) cfa
CANINE_2:CFA.19433.1.S1_S_AT similar to CDK-activating kinase assembly factor MAT1 (RING finger protein MAT1) (Menage a trois) (CDK7/cyclin H assembly factor) (p36) (p35) (Cyclin G1 interacting protein) (RING finger protein 66) cfa
CANINE_2:CFAAFFX.23967.1.S1_S_AT similar to CDK-activating kinase assembly factor MAT1 (RING finger protein MAT1) (Menage a trois) (CDK7/cyclin H assembly factor) (p36) (p35) (Cyclin G1 interacting protein) (RING finger protein 66) cfa
DROSOPHILA_2:1634055_AT dm
DROSGENOME1:142233_AT dm
CHICKEN:GGAAFFX.7567.1.S1_AT similar to menage a trois 1 gga
HG-U133_PLUS_2:203565_S_AT menage a trois 1 (CAK assembly factor) hs
HG-U133A:203565_S_AT menage a trois 1 (CAK assembly factor) hs
HG-FOCUS:203565_S_AT menage a trois 1 (CAK assembly factor) hs
HG-U133A_2:203565_S_AT menage a trois 1 (CAK assembly factor) hs
HG-U95AV2:1688_S_AT menage a trois 1 (CAK assembly factor) hs
HC-G110:1688_S_AT menage a trois 1 (CAK assembly factor) hs
HUGENEFL:X87843_AT menage a trois 1 (CAK assembly factor) hs
U133_X3P:G4505224_3P_A_AT menage a trois 1 (CAK assembly factor) hs
HG-U95AV2:38387_AT menage a trois 1 (CAK assembly factor) hs
U133_X3P:1556828_3P_AT Menage a trois 1 (CAK assembly factor) hs
HG-U133_PLUS_2:1556828_AT Menage a trois 1 (CAK assembly factor) hs
HG-U133_PLUS_2:237593_AT Menage a trois 1 (CAK assembly factor) hs
HG-U133B:237593_AT Menage a trois 1 (CAK assembly factor) hs
HG-U95C:55285_AT Menage a trois 1 (CAK assembly factor) hs
HG-U95D:80294_AT Menage a trois 1 (CAK assembly factor) hs
HU35KSUBD:RC_W85729_AT Menage a trois 1 (CAK assembly factor) hs
U133_X3P:HS.147250.0.A1_3P_AT Menage a trois 1 (CAK assembly factor) hs
MOUSE430A_2:1432177_A_AT menage a trois 1 mm
MOE430A:1432177_A_AT menage a trois 1 mm
MOUSE430_2:1432177_A_AT menage a trois 1 mm
MU11KSUBA:U35249_S_AT menage a trois 1 mm
MG-U74AV2:98979_AT menage a trois 1 mm
MG-U74AV2:161557_AT menage a trois 1 mm
MU19KSUBB:TC34233_AT Menage a trois 1 (Mnat1), mRNA mm
MU19KSUBB:TC34233_G_AT Menage a trois 1 (Mnat1), mRNA mm
RG-U34C:RC_AI104569_AT menage a trois 1 rn
RAE230A:1375956_AT menage a trois 1 rn
RAT230_2:1375956_AT menage a trois 1 rn
YEAST_2:1770114_AT Subunit of TFIIH and nucleotide excision repair factor 3 complexes, involved in transcription initiation, required for nucleotide excision repair; ring finger protein similar to mammalian CAK and TFIIH subunit Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7049 cell cycle inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB71017 Mnat (menage a trois) tfiih subunit protein 1 [Caenorhabditis elegans] ref|NP_494280.3| F53G2.7 [Caenorhabditis elegans] 1.0E-160
blast CAE73070 Hypothetical protein CBG20441 [Caenorhabditis briggsae] 1.0E-137
blast AAH83216 Zgc:101599 [Danio rerio] ref|NP_001006100.1| hypothetical protein LOC450080 [Danio rerio] 1.0E-47
Protein Domains
Database ID Description E-Value
Pfam IPR004575 EMBL-EBI Cdk-activating kinase assembly factor (MAT1) 9.8E-111
Sequence
Target Sequence 
>C. ELEGANS:174982_AT
tagtttcggcctttttcagctgaattttaagtttttttctccctaatttttaccattttt
tgctcattttggagcatttttcccccgatttttgctcatttgagcctaatttcccctaat
tctgaccatttttttgtagattttccgtccattttttgctcattttcgagcatttttctc
ccattatttccctatttttggccagtttctctcaaattttgtgctctttttcca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TAGTTTCGGCCTTTTTCAGCTGAAT 184 653 47 Antisense
TCGGCCTTTTTCAGCTGAATTTTAA 222 605 52 Antisense
TCATTTGAGCCTAATTTCCCCTAAT 675 617 142 Antisense
TAATTTCCCCTAATTCTGACCATTT 431 635 153 Antisense
TCCCCTAATTCTGACCATTTTTTTG 29 597 158 Antisense
AATTCTGACCATTTTTTTGTAGATT 366 177 164 Antisense
TTCGAGCATTTTTCTCCCATTATTT 132 697 211 Antisense
CGAGCATTTTTCTCCCATTATTTCC 185 251 213 Antisense
CCTATTTTTGGCCAGTTTCTCTCAA 414 267 237 Antisense
TTTTTGGCCAGTTTCTCTCAAATTT 51 675 241 Antisense
TCTCAAATTTTGTGCTCTTTTTCCA 376 613 256 Antisense
Sequence Source Affymetrix Proprietary Database