[Home] | [Total List]

[192720_at] DNA-repair protein XP-A homolog like

Description K07G5.2 /REP_DB=WormBase Gene ID /WP=CE06130 /TR=Q21302 /GB=CAA95829.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=DNA-repair protein XP-A homolog like
Cluster 6grp_highest_10_10 > 86      6grp_high1_10_10 > 76      4grp_highest_8_8 > 55      4grp_high_8_8 > 10      6grp_highest_nonorm > 92      6grp_total > 67      4grp_total > 21      6grp_highest_sub > Da      6grp_cgc > 48      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 120
1 2 3 4 range
A 235.1
(1.1)
P 		219.1
(0.2)
P 		159.1
(-3)
P 		270.9
(3)
P 		112
B 236.9
(3)
P 		167.4
(-1.9)
P 		151.4
(-3)
P 		224.2
(2.1)
P 		86
C 229.2
(1.6)
P 		165.4
(-3)
P 		173.8
(-2.4)
P 		248.6
(3)
P 		83
avr 233.7
(2) 		184
(-1.4) 		161.4
(-3) 		247.9
(3) 		87

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 311
1 2 3 4 5 6 range
A 280.9
(-0.7)
P 		217.5
(-3)
P 		301.5
(0)
P 		226.4
(-2.7)
P 		264.2
(-1.3)
P 		384.5
(3)
P 		167
B 280.2
(-2.5)
P 		291.8
(-2.2)
P 		316
(-1.7)
P 		258
(-3)
P 		374.6
(-0.3)
P 		518.4
(3)
P 		260
C 207
(-3)
P 		316.4
(-0.8)
P 		251
(-2.1)
P 		220.9
(-2.7)
P 		227.8
(-2.6)
P 		508
(3)
P 		301
avr 256
(-2.5) 		275.2
(-2) 		289.5
(-1.6) 		235.1
(-3) 		288.9
(-1.6) 		470.3
(3) 		235
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 51
1 2 3 4 range
A 85.6
(3)
P 		47.6
(-2)
P 		41.6
(-2.8)
P 		39.7
(-3)
P 		46
B 75.5
(3)
P 		41.4
(-2.1)
P 		35.1
(-3)
P 		47.8
(-1.1)
P 		40
C 75.9
(3)
P 		47.6
(-2)
P 		60.6
(0.3)
P 		41.9
(-3)
P 		34
avr 79
(3) 		45.5
(-2.6) 		45.8
(-2.5) 		43.1
(-3) 		36

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 149
1 2 3 4 5 6 range
A 51.8
(-3)
P 		77.3
(0.7)
P 		65.7
(-1)
P 		57.4
(-2.2)
P 		79.7
(1)
P 		93.6
(3)
P 		42
B 97.5
(-1.6)
P 		97.1
(-1.6)
P 		76.7
(-2.6)
P 		68.3
(-3)
P 		152.2
(1)
P 		193.3
(3)
P 		125
C 76.7
(-1.5)
P 		96.6
(-0.5)
P 		63.9
(-2.1)
P 		44.4
(-3)
P 		73.7
(-1.6)
P 		170.1
(3)
P 		126
avr 75.3
(-1.8) 		90.3
(-0.9) 		68.8
(-2.2) 		56.7
(-3) 		101.9
(-0.2) 		152.3
(3) 		96
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192720_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1440
Sequence Type Exemplar sequence
Representative Public ID K07G5.2 NCBI
Target Description K07G5.2 /REP_DB=WormBase Gene ID /WP=CE06130 /TR=Q21302 /GB=CAA95829.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=DNA-repair protein XP-A homolog like
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_059624(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059624 NCBI Caenorhabditis elegans human XPA (Xeroderma pigmentosum comp grp A) related family member (xpa-1) (xpa-1) mRNA, complete cds. 11/11 None
SNAP00000015324 ENSEMBL cdna:SNAP chromosome:CEL140:I:7167856:7168883:1 11/11 None
GENEFINDER00000015331 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:7167856:7175036:1 11/11 None
K07G5.2 ENSEMBL cdna:known chromosome:CEL140:I:7167856:7168883:1 gene:K07G5.2 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:7167786-7168814(+) 100.0 100.0
Public Domain and Genome References
Gene Title DNA-repair protein XP-A homolog like
Gene Symbol xpa-1
Ensembl K07G5.2
Entrez Gene 187120 Entrez gene
SwissProt Q21302 EMBL-EBI
WormBase CE06130 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1584218_AT similar to DNA-repair protein complementing XP-A cells (Xeroderma pigmentosum group A complementing protein) cfa
CANINE_2:CFA.11211.1.A1_AT similar to DNA-repair protein complementing XP-A cells (Xeroderma pigmentosum group A complementing protein) cfa
CANINE_2:CFAAFFX.4557.1.S1_S_AT similar to DNA-repair protein complementing XP-A cells (Xeroderma pigmentosum group A complementing protein) cfa
DROSOPHILA_2:1623485_AT Xeroderma pigmentosum group A-like dm
DROSGENOME1:143515_AT Xeroderma pigmentosum group A-like dm
HG-U133_PLUS_2:205672_AT xeroderma pigmentosum, complementation group A hs
HG-U133A:205672_AT xeroderma pigmentosum, complementation group A hs
HG-FOCUS:205672_AT xeroderma pigmentosum, complementation group A hs
HG-U133A_2:205672_AT xeroderma pigmentosum, complementation group A hs
HG-U95AV2:1307_AT xeroderma pigmentosum, complementation group A hs
HC-G110:1307_AT xeroderma pigmentosum, complementation group A hs
HG-U95AV2:1308_G_AT xeroderma pigmentosum, complementation group A hs
HC-G110:1308_G_AT xeroderma pigmentosum, complementation group A hs
HG-U95AV2:1995_AT xeroderma pigmentosum, complementation group A hs
HC-G110:1995_AT xeroderma pigmentosum, complementation group A hs
HU35KSUBD:RC_AA242764_S_AT xeroderma pigmentosum, complementation group A hs
HUGENEFL:D14533_AT xeroderma pigmentosum, complementation group A hs
U133_X3P:G4507936_3P_AT xeroderma pigmentosum, complementation group A hs
HG-U133_PLUS_2:1559515_AT Xeroderma pigmentosum, complementation group A hs
HG-U95B:49748_AT Xeroderma pigmentosum, complementation group A hs
HU35KSUBB:RC_AA233844_AT Xeroderma pigmentosum, complementation group A hs
HU35KSUBC:RC_H68839_AT Xeroderma pigmentosum, complementation group A hs
U133_X3P:HS2.407089.1.A1_3P_AT Xeroderma pigmentosum, complementation group A hs
MOUSE430_2:1460725_AT xeroderma pigmentosum, complementation group A mm
MOE430A:1460725_AT xeroderma pigmentosum, complementation group A mm
MOUSE430A_2:1460725_AT xeroderma pigmentosum, complementation group A mm
MU11KSUBB:X74351_S_AT xeroderma pigmentosum, complementation group A mm
MG-U74AV2:92384_AT xeroderma pigmentosum, complementation group A mm
MG-U74AV2:161552_I_AT xeroderma pigmentosum, complementation group A mm
MOE430A:1456002_AT xeroderma pigmentosum, complementation group A mm
MOUSE430A_2:1456002_AT xeroderma pigmentosum, complementation group A mm
MOUSE430_2:1456002_AT xeroderma pigmentosum, complementation group A mm
MOE430A:1437320_S_AT xeroderma pigmentosum, complementation group A mm
MOUSE430A_2:1437320_S_AT xeroderma pigmentosum, complementation group A mm
MOUSE430_2:1437320_S_AT xeroderma pigmentosum, complementation group A mm
MG-U74BV2:108787_AT Xeroderma pigmentosum, complementation group A, mRNA (cDNA clone MGC:36016 IMAGE:4489063) mm
RAE230B:1384029_AT xeroderma pigmentosum, complementation group A (predicted) rn
RAT230_2:1384029_AT xeroderma pigmentosum, complementation group A (predicted) rn
RAE230B:1397807_AT Xeroderma pigmentosum, complementation group A (predicted) rn
RAT230_2:1397807_AT Xeroderma pigmentosum, complementation group A (predicted) rn
RG-U34B:RC_AA996961_AT Xeroderma pigmentosum, complementation group A (predicted) rn
YEAST_2:1779649_AT Protein that recognizes and binds damaged DNA during nucleotide excision repair; subunit of Nucleotide Excision Repair Factor 1 (NEF1); contains zinc finger motif; homolog of human XPA protein Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6289 nucleotide-excision 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
Protein Similarities
Method ID Description E-Value
blast CAA95830 Hypothetical protein K07G5.3 [Caenorhabditis elegans] ref|NP_492026.1| K07G5.3 [Caenorhabditis elegans] 0.0
blast CAE73085 Hypothetical protein CBG20463 [Caenorhabditis briggsae] 0.0
blast CAA95829 Hypothetical protein K07G5.2 [Caenorhabditis elegans] ref|NP_492025.1| human XPA (Xeroderma pigmentosum comp grp A) related family member (xpa-1) [Caenorhabditis elegans] 1.0E-134
blast CAA95829 Hypothetical protein K07G5.2 [Caenorhabditis elegans] ref|NP_492025.1| human XPA (Xeroderma pigmentosum comp grp A) related family member (xpa-1) [Caenorhabditis elegans] 1.0E-126
blast CAE73084 Hypothetical protein CBG20462 [Caenorhabditis briggsae] 1.0E-116
blast JG0191 XPA protein - African clawed frog 1.0E-47
Protein Domains
Database ID Description E-Value
Pfam IPR000465 EMBL-EBI XPA 3.9E-37
Pfam IPR000465 EMBL-EBI XPA 9.6E-21
Pfam IPR000008 EMBL-EBI C2 domain 6.3E-9
Sequence
Target Sequence 
>C. ELEGANS:192720_AT
ggtggcggattctgtgatgacgacgatgaggtgcaggaacgtcgcgagcaaatttccgaa
atgagacaaaaacgcgaagaagcagctcacaatttgattcaagctcctgaaaattgtgaa
aagtgcgacaaaggtttgatggacagttggctttgggaacgatataactgtgcagtttgt
gatgcttgtagagatgataaaggcgaacataaattacttgctcgtacggaagtcaaaaat
acatatcttctgaaagattgcgatctggatctgcgcaaaccaaagcttcggtattgggcg
aagaaaaatccacataatccgagatatggagacatgaagttgtatctgaagtgccagatt
gaaacacgagttctggaagtgcatggtagttgggaagatctggaattgaagaaagagctt
cgtgagcaatccaaagaagttcgttccgaaaagcgttttgagaaaaagctcaaagatctc
cgccagcaaattcgtggaacttccggtgtgaaagttgatttcggaagacctcatactcac
gaattcggga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGTGGCGGATTCTGTGATGACGACG 395 499 109 Antisense
GATGAGGTGCAGGAACGTCGCGAGC 297 411 133 Antisense
GAACGTCGCGAGCAAATTTCCGAAA 74 347 145 Antisense
GAAGCAGCTCACAATTTGATTCAAG 531 341 187 Antisense
GATGGACAGTTGGCTTTGGGAACGA 447 405 246 Antisense
GAAAGATTGCGATCTGGATCTGCGC 68 361 360 Antisense
GGATCTGCGCAAACCAAAGCTTCGG 89 513 375 Antisense
AAAGATCTCCGCCAGCAAATTCGTG 645 121 580 Antisense
GCAAATTCGTGGAACTTCCGGTGTG 160 317 594 Antisense
GATTTCGGAAGACCTCATACTCACG 340 427 625 Antisense
AGACCTCATACTCACGAATTCGGGA 152 53 634 Antisense
Sequence Source Affymetrix Proprietary Database