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[173345_s_at] DNA mismatch repair protein

Description CEK127G7R_rc /REP_DB=TREMBL Accession /GB=D64928 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk127g7 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 88      6grp_high1_10_10 > 88      4grp_highest_8_8 > 36      4grp_high_8_8 > 0      6grp_highest_nonorm > 94      6grp_total > 88      4grp_total > 07      6grp_highest_sub > Da      6grp_cgc > 59      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 172
1 2 3 4 range
A 426.5
(3)
P 		334.5
(-3)
P 		415.9
(2.3)
P 		389.2
(0.6)
P 		92
B 420.2
(-1.1)
P 		381.2
(-3)
P 		401.6
(-2)
P 		506.6
(3)
P 		125
C 440.2
(3)
P 		355
(-3)
P 		425.4
(2)
P 		378.4
(-1.4)
P 		85
avr 429
(3) 		356.9
(-3) 		414.3
(1.8) 		424.7
(2.6) 		72

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 763
1 2 3 4 5 6 range
A 462.5
(-1.6)
P 		432.7
(-2)
P 		356
(-3)
P 		454
(-1.7)
P 		715.2
(1.7)
P 		811.8
(3)
P 		456
B 461.5
(-2)
P 		360.4
(-3)
P 		466.5
(-2)
P 		467.2
(-2)
P 		731
(0.5)
P 		995.2
(3)
P 		635
C 302
(-3)
P 		436.1
(-1.9)
P 		375.5
(-2.4)
P 		441.8
(-1.9)
P 		573.3
(-0.9)
P 		1064.7
(3)
P 		763
avr 408.7
(-2.9) 		409.7
(-2.9) 		399.3
(-3) 		454.3
(-2.4) 		673.2
(-0.1) 		957.2
(3) 		558
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 98
1 2 3 4 range
A 155.3
(3)
P 		72.6
(-2)
P 		108.7
(0.2)
P 		57
(-3)
P 		98
B 134
(3)
P 		94.1
(-2.8)
P 		93
(-3)
P 		108
(-0.8)
P 		41
C 145.7
(2.8)
P 		102.1
(-0.3)
P 		148.3
(3)
P 		63.8
(-3)
P 		85
avr 145
(3) 		89.6
(-1.8) 		116.7
(0.5) 		76.3
(-3) 		69

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 294
1 2 3 4 5 6 range
A 85.3
(-2.7)
P 		153.9
(0.3)
P 		77.5
(-3)
P 		115.1
(-1.4)
P 		215.8
(3)
P 		197.6
(2.2)
P 		138
B 160.6
(-1.9)
P 		120
(-2.8)
P 		113.3
(-3)
P 		123.8
(-2.8)
P 		297
(1.3)
P 		371.1
(3)
P 		258
C 112
(-2.5)
P 		133.1
(-2)
P 		95.6
(-2.8)
P 		88.8
(-3)
P 		185.5
(-0.8)
P 		356.4
(3)
P 		268
avr 119.3
(-2.3) 		135.7
(-1.9) 		95.5
(-3) 		109.2
(-2.6) 		232.8
(0.9) 		308.4
(3) 		213
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173345_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27827
Sequence Type Exemplar sequence
Representative Public ID CEK127G7R NCBI
Target Description CEK127G7R_rc /REP_DB=TREMBL Accession /GB=D64928 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk127g7 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript 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_067395(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067395 NCBI Caenorhabditis elegans MLH (MutL Homolog) family member (mlh-1) (mlh-1) mRNA, complete cds. 11/11 A 
SNAP00000022266 ENSEMBL cdna:SNAP chromosome:CEL140:III:13508863:13514075:-1 11/11 None
GENEFINDER00000022271 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:13508863:13514075:-1 11/11 None
T28A8.7.2 ENSEMBL cdna:known chromosome:CEL140:III:13508841:13514087:-1 gene:T28A8.7 11/11 None
T28A8.7.1 ENSEMBL cdna:known chromosome:CEL140:III:13508841:13514086:-1 gene:T28A8.7 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
chrIII:13508841-13509594(-) 98.84 98.84
Public Domain and Genome References
Gene Title DNA mismatch repair protein
Gene Symbol mlh-1
Ensembl T28A8.7
Entrez Gene 176783 Entrez gene
SwissProt Q9XU10 EMBL-EBI
WormBase CE35190 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6298 mismatch repair inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB07283 Hypothetical protein T28A8.7 [Caenorhabditis elegans] ref|NP_499796.2| MLH (MutL Homolog) family member (mlh-1) [Caenorhabditis elegans] 0.0
blast CAE69257 Hypothetical protein CBG15306 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002099 EMBL-EBI DNA mismatch repair protein 8.3E-13
Pfam IPR003594 EMBL-EBI ATP-binding region, ATPase-like 1.6E-7
Sequence
Target Sequence 
>C. ELEGANS:173345_S_AT
gctaccatttctaattgcgacactcgttttgaacgtggattatgatgatgaacaaaacac
attccgcacaatttgccgtgccatcggcgatctcttcacactcgacaccaacttcatcac
actcgataagaaaatatcggcgttttcggcaactccctggaaaacactgattaaggaggt
cctcatgcctcttgtcaaacggaaattcattccgcctgagcatttcaagcaagctggagt
cattcgacaattggctgattctcatgatttgtac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTACCATTTCTAATTGCGACACTC 385 303 40 Antisense
GCGACACTCGTTTTGAACGTGGATT 480 289 56 Antisense
AACACATTCCGCACAATTTGCCGTG 266 135 95 Antisense
AATTTGCCGTGCCATCGGCGATCTC 591 173 109 Antisense
CACCAACTTCATCACACTCGATAAG 350 201 145 Antisense
TCGGCAACTCCCTGGAAAACACTGA 614 599 185 Antisense
GATTAAGGAGGTCCTCATGCCTCTT 534 427 208 Antisense
TCCTCATGCCTCTTGTCAAACGGAA 274 593 219 Antisense
CATTCCGCCTGAGCATTTCAAGCAA 462 217 247 Antisense
CAAGCAAGCTGGAGTCATTCGACAA 585 181 265 Antisense
ATTGGCTGATTCTCATGATTTGTAC 373 3 289 Antisense
Sequence Source Affymetrix Proprietary Database