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[188179_at]

Description Y41C4A.14 /REP_DB=WormBase Gene ID /WP=CE20254 /GEN=hpr-1 /TR=Q9U2I2 /GB=CAB63359.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 55      6grp_total > 56      4grp_total > 59      6grp_cgc > 37      6grp_cgc_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 78
1 2 3 4 range
A 81.6
(-1.1)
P 		126.5
(3)
P 		113.1
(1.8)
P 		60.8
(-3)
A 		66
B 138.8
(3)
P 		137.8
(2.9)
M 		115.2
(0.7)
P 		78.5
(-3)
A 		60
C 94.2
(-2.8)
P 		95.1
(-2.6)
P 		123.6
(3)
P 		93.1
(-3)
M 		31
avr 104.9
(0.9) 		119.8
(3) 		117.3
(2.6) 		77.5
(-3) 		42

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 90
1 2 3 4 5 6 range
A 134.5
(0.1)
P 		115.7
(-1.2)
P 		90.7
(-3)
P 		176.1
(3)
P 		92
(-2.9)
P 		173.2
(2.8)
P 		85
B 108.3
(-1.4)
P 		167
(3)
P 		139.8
(1)
P 		86.5
(-3)
P 		125.1
(-0.1)
P 		147.2
(1.5)
P 		81
C 113
(-1.1)
P 		160.8
(2.8)
P 		137.5
(0.9)
P 		163.2
(3)
M 		90
(-3)
P 		151.1
(2)
P 		73
avr 118.6
(-1.2) 		147.8
(2) 		122.7
(-0.8) 		141.9
(1.3) 		102.4
(-3) 		157.2
(3) 		55
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 35
1 2 3 4 range
A 29.7
(3)
P 		27.5
(2.4)
P 		29.6
(3)
P 		8.9
(-3)
A 		21
B 44.3
(3)
P 		34
(0.8)
M 		26.7
(-0.8)
P 		16.7
(-3)
A 		28
C 31.2
(0.4)
P 		27.3
(-0.5)
P 		43.1
(3)
P 		15.7
(-3)
M 		27
avr 35.1
(3) 		29.6
(1.5) 		33.1
(2.4) 		13.8
(-3) 		21

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 36
1 2 3 4 5 6 range
A 24.8
(-1.8)
P 		41.1
(2.1)
P 		19.8
(-3)
P 		44.7
(3)
P 		27.8
(-1.1)
P 		42.2
(2.4)
P 		25
B 37.7
(-0.3)
P 		55.6
(3)
P 		33.9
(-1)
P 		22.9
(-3)
P 		50.8
(2.1)
P 		54.9
(2.9)
P 		33
C 41.9
(0.6)
P 		49.1
(2.6)
P 		35
(-1.4)
P 		32.8
(-2)
M 		29.1
(-3)
P 		50.6
(3)
P 		22
avr 34.8
(-1.4) 		48.6
(2.8) 		29.6
(-3) 		33.5
(-1.8) 		35.9
(-1.1) 		49.2
(3) 		20
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188179_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6341
Sequence Type Exemplar sequence
Representative Public ID Y41C4A.14 NCBI
Target Description Y41C4A.14 /REP_DB=WormBase Gene ID /WP=CE20254 /GEN=hpr-1 /TR=Q9U2I2 /GB=CAB63359.1 /SUBMIT=HINXTON /CHR=3 /FEA=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_067120(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067120 NCBI Caenorhabditis elegans MoRTal germline family member (mrt-2) (mrt-2) mRNA, complete cds. 11/11 None
GENEFINDER00000034907 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:11746925:11750023:1 11/11 None
Y41C4A.14 ENSEMBL cdna:known chromosome:CEL140:III:11746920:11750048:1 gene:Y41C4A.14 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000034895 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:11746923-11749848(+) 99.38 100.0
Public Domain and Genome References
Gene Title
Gene Symbol mrt-2
Ensembl Y41C4A.14
Entrez Gene 176608 Entrez gene
SwissProt Q9U2I2 EMBL-EBI
WormBase CE29376 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1597796_AT similar to RAD1 homolog isoform 1 cfa
CANINE_2:CFA.19577.1.S1_AT similar to RAD1 homolog isoform 1 cfa
CANINE_2:CFA.9243.1.A1_AT similar to RAD1 homolog isoform 1 cfa
CANINE_2:CFAAFFX.28722.1.S1_AT similar to RAD1 homolog isoform 1 cfa
DROSOPHILA_2:1632949_AT dm
DROSGENOME1:144159_AT dm
HG-U133_PLUS_2:235253_AT RAD1 homolog (S. pombe) hs
HG-U133B:235253_AT RAD1 homolog (S. pombe) hs
HG-U133A:210216_X_AT RAD1 homolog (S. pombe) hs
HG-U133_PLUS_2:210216_X_AT RAD1 homolog (S. pombe) hs
HG-U133A_2:210216_X_AT RAD1 homolog (S. pombe) hs
HG-U133_PLUS_2:204460_S_AT RAD1 homolog (S. pombe) hs
HG-FOCUS:204460_S_AT RAD1 homolog (S. pombe) hs
HG-U133A:204460_S_AT RAD1 homolog (S. pombe) hs
HG-U133A_2:204460_S_AT RAD1 homolog (S. pombe) hs
HG-U133A_2:204461_X_AT RAD1 homolog (S. pombe) hs
HG-U133A:204461_X_AT RAD1 homolog (S. pombe) hs
HG-U133_PLUS_2:204461_X_AT RAD1 homolog (S. pombe) hs
HU35KSUBA:RC_AA228124_AT RAD1 homolog (S. pombe) hs
HU35KSUBA:RC_AA421715_AT RAD1 homolog (S. pombe) hs
U133_X3P:G3309650_3P_A_AT RAD1 homolog (S. pombe) hs
U133_X3P:HS.34392.0.A1_3P_X_AT RAD1 homolog (S. pombe) hs
U133_X3P:HS.34392.0.A1_3P_AT RAD1 homolog (S. pombe) hs
U133_X3P:HS.261727.0.A1_3P_AT RAD1 homolog (S. pombe) hs
HG-U133_PLUS_2:228535_AT RAD1 homolog (S. pombe) hs
HG-U133B:228535_AT RAD1 homolog (S. pombe) hs
HG-U95AV2:36857_AT RAD1 homolog (S. pombe) hs
HG-U95B:50930_AT RAD1 homolog (S. pombe) hs
HG-U95E:90897_AT RAD1 homolog (S. pombe) hs
MU11KSUBA:C79507_RC_F_AT RAD1 homolog (S. pombe) mm
MG-U74AV2:99005_AT RAD1 homolog (S. pombe) mm
MOE430A:1448414_AT RAD1 homolog (S. pombe) mm
MOUSE430A_2:1448414_AT RAD1 homolog (S. pombe) mm
MOUSE430_2:1448414_AT RAD1 homolog (S. pombe) mm
MU19KSUBC:TC38339_AT RAD1 homolog (S. pombe) (Rad1), mRNA mm
RAE230A:1377338_AT RAD1 homolog (S. pombe) (predicted) rn
RAT230_2:1377338_AT RAD1 homolog (S. pombe) (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6281 DNA repair inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3684 damaged DNA binding inferred from electronic annotation QuickGO AmiGO
4527 exonuclease activity inferred from electronic annotation QuickGO AmiGO
3684 damaged DNA binding inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB63359 Hypothetical protein Y41C4A.14 [Caenorhabditis elegans] ref|NP_499521.1| MoRTal germline family member (mrt-2) [Caenorhabditis elegans] gb|AAC95525.1| Rad1-like protein [Caenorhabditis elegans] 1.0E-129
blast CAE67663 Hypothetical protein CBG13226 [Caenorhabditis briggsae] 2.0E-88
blast CAE67663 Hypothetical protein CBG13226 [Caenorhabditis briggsae] 3.0E-88
blast XP_536505 PREDICTED: similar to RAD1 homolog isoform 1 isoform 1 [Canis familiaris] 9.0E-22
blast XP_536505 PREDICTED: similar to RAD1 homolog isoform 1 isoform 1 [Canis familiaris] 1.0E-21
Protein Domains
Database ID Description E-Value
Pfam IPR003021 EMBL-EBI Repair protein Rad1/Rec1 1.7E-7
Sequence
Target Sequence 
>C. ELEGANS:188179_AT
gttctgtaaaagtctcgtatccgggaatgtttcagcctgtgaaaatgcttgttgaagacg
cagacggatgggtggcacgtggcaattttacaacaacgctggcagatcaagagctcgact
ttgaattcgatgacgctggtgtgctggcgacctatctgcttaaaactcaagttctcaagg
agattatcaaggacttcgatgacacaagccgaacggtgagaattcaattcaccaagaatt
cactgtgtttcacgactttcggtgatgttggcgagactacagtatcaataccgtctcgaa
gccttcaaatggaaagtgtaaagtgccttgaagaagttgaatttagctatcttctgtcgc
ttattcaacgaatgactaccgcctttatactggctacaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTCTGTAAAAGTCTCGTATCCGGG 641 439 296 Antisense
GTATCCGGGAATGTTTCAGCCTGTG 394 447 312 Antisense
GAAGACGCAGACGGATGGGTGGCAC 335 339 349 Antisense
GATGGGTGGCACGTGGCAATTTTAC 257 407 362 Antisense
AACGCTGGCAGATCAAGAGCTCGAC 46 147 390 Antisense
AATTCGATGACGCTGGTGTGCTGGC 671 177 419 Antisense
TGGCGACCTATCTGCTTAAAACTCA 692 535 440 Antisense
GAATTCACTGTGTTTCACGACTTTC 145 325 531 Antisense
TATCAATACCGTCTCGAAGCCTTCA 31 661 578 Antisense
AGCTATCTTCTGTCGCTTATTCAAC 500 79 640 Antisense
ACTACCGCCTTTATACTGGCTACAA 522 89 670 Antisense
Sequence Source Affymetrix Proprietary Database