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[190390_s_at] DNA ligase like domain

Description K07C5.3 /REP_DB=WormBase Gene ID /WP=CE06113 /TR=Q21275 /GB=CAA94896.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=DNA ligase like domain
Cluster 6grp_highest_10_10 > 65      6grp_high1_10_10 > 56      4grp_highest_8_8 > 53      4grp_high_8_8 > 17      6grp_highest_nonorm > 83      6grp_total > 56      4grp_total > 31      6grp_high1_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 204
1 2 3 4 range
A 439.3
(3)
P 		292.5
(-2.5)
P 		279.3
(-3)
P 		310.6
(-1.8)
P 		160
B 478.8
(3)
P 		310.9
(-2)
P 		277.3
(-3)
P 		394.4
(0.5)
P 		202
C 477
(2.9)
P 		357.1
(-1.7)
P 		323.3
(-3)
P 		480.8
(3)
P 		158
avr 465
(3) 		320.2
(-2.1) 		293.3
(-3) 		395.3
(0.6) 		172

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 401
1 2 3 4 5 6 range
A 405.4
(-2.2)
P 		471
(-0)
P 		562
(3)
P 		434.7
(-1.3)
P 		382.3
(-3)
P 		462.6
(-0.3)
P 		180
B 487.3
(0.2)
P 		497
(0.3)
P 		418.1
(-0.9)
P 		275.1
(-3)
P 		412.6
(-0.9)
P 		676.3
(3)
P 		401
C 403.9
(-0.6)
P 		530.4
(1.8)
P 		438.3
(0)
P 		282.3
(-3)
P 		349.3
(-1.7)
P 		590.6
(3)
P 		308
avr 432.2
(-0.5) 		499.5
(1.1) 		472.8
(0.5) 		330.7
(-3) 		381.4
(-1.8) 		576.5
(3) 		246
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 114
1 2 3 4 range
A 159.9
(3)
P 		63.5
(-2.1)
P 		73
(-1.6)
P 		45.5
(-3)
P 		114
B 152.7
(3)
P 		76.8
(-2.2)
P 		64.3
(-3)
P 		84
(-1.7)
P 		88
C 157.9
(3)
P 		102.7
(-1.3)
P 		112.7
(-0.5)
P 		81.1
(-3)
P 		77
avr 156.8
(3) 		81
(-2.3) 		83.3
(-2.1) 		70.2
(-3) 		87

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 195
1 2 3 4 5 6 range
A 74.7
(-3)
P 		167.5
(3)
P 		122.4
(0.1)
P 		110.2
(-0.7)
P 		115.4
(-0.4)
P 		112.6
(-0.5)
P 		93
B 169.5
(0.2)
P 		165.4
(0.1)
P 		101.5
(-2)
P 		72.9
(-3)
P 		167.6
(0.2)
P 		252.2
(3)
P 		179
C 149.7
(1)
P 		161.8
(1.5)
P 		111.5
(-0.7)
P 		56.8
(-3)
P 		113
(-0.6)
P 		197.7
(3)
P 		141
avr 131.3
(-0.1) 		164.9
(1.7) 		111.8
(-1.2) 		80
(-3) 		132
(-0.1) 		187.5
(3) 		108
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190390_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11392
Sequence Type Exemplar sequence
Representative Public ID K07C5.3 NCBI
Target Description K07C5.3 /REP_DB=WormBase Gene ID /WP=CE06113 /TR=Q21275 /GB=CAA94896.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=DNA ligase like domain
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_073258(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073258 NCBI Caenorhabditis elegans K07C5.3 (K07C5.3) mRNA, complete cds. 11/11 None
SNAP00000014062 ENSEMBL cdna:SNAP chromosome:CEL140:V:10345614:10347493:1 11/11 None
GENEFINDER00000014072 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:10345614:10347936:1 11/11 None
K07C5.3 ENSEMBL cdna:known chromosome:CEL140:V:10345614:10348053:1 gene:K07C5.3 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
chrV:10345613-10347936(+) 100.0 100.0
Public Domain and Genome References
Gene Title DNA ligase like domain
Ensembl K07C5.3
Entrez Gene 179441 Entrez gene
SwissProt Q21275 EMBL-EBI
WormBase CE06113 Wormbase
Functional Annotations
Gene Ontology
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
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA94896 Hypothetical protein K07C5.3 [Caenorhabditis elegans] ref|NP_505659.1| K07C5.3 [Caenorhabditis elegans] 0.0
blast CAE67538 Hypothetical protein CBG13063 [Caenorhabditis briggsae] 1.0E-176
blast XP_396537 PREDICTED: similar to DNA ligase III (Polydeoxyribonucleotide synthase [ATP]) [Apis mellifera] 2.0E-36
Protein Domains
Database ID Description E-Value
Pfam IPR001510 EMBL-EBI Zn-finger, NAD(+) ADP-ribosyltransferase 7.3E-20
Sequence
Target Sequence 
>C. ELEGANS:190390_S_AT
gagccatttgaagtttgctgcgaaacgaatgcgtcacgatgaactggatattctcattcg
attgattcgcaaagagttggatacggatgcagatgcttcaattattctcaaaggagttca
tccgaaagctccagaaattttccaatcaaatggattggacagcgttattgaaaaatatta
caacaacgatttcgaaaaatcggctcaacagaagactagcagctcgaagaacaaggttgc
agagccaagtttcaaaaaatcgaaaagacaagaagagtctgatgatgaggagagcgatgt
cgaaatgtccaattcggaatccgaaggagatcaagattcagatagtggatcggacaatga
agaagaaatcagcggatctgattctgacgacgtgtcggaaatttcatcagatgatgaaga
ggaatcgtctttcaaagagaattctccgaaaaaagtagccagaggcactagaactcgtcc
acgtggaaacgatggaaacatcattcaaaaagaagagtgtccaccagatatggaagctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGCCATTTGAAGTTTGCTGCGAAA 554 385 885 Antisense
GCTGCGAAACGAATGCGTCACGATG 275 295 901 Antisense
GAACTGGATATTCTCATTCGATTGA 137 349 925 Antisense
GAGTTGGATACGGATGCAGATGCTT 541 397 958 Antisense
GAGTTCATCCGAAAGCTCCAGAAAT 92 399 998 Antisense
TCAACAGAAGACTAGCAGCTCGAAG 140 631 1089 Antisense
GAACAAGGTTGCAGAGCCAAGTTTC 32 353 1113 Antisense
AGCGGATCTGATTCTGACGACGTGT 197 81 1255 Antisense
GACGACGTGTCGGAAATTTCATCAG 603 379 1270 Antisense
CAGAGGCACTAGAACTCGTCCACGT 219 205 1344 Antisense
GAGTGTCCACCAGATATGGAAGCTT 9 401 1399 Antisense
Sequence Source Affymetrix Proprietary Database