[Home] | [Total List]

[189817_at] DNA binding protein

Description F21D5.4 /REP_DB=WormBase Gene ID /WP=CE03247 /TR=Q19682 /GB=CAA91034.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=DNA binding protein
Cluster 6grp_total > 53      4grp_total > 27      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 56
1 2 3 4 range
A 14.1
(3)
A 		7.1
(-0.8)
A 		3.1
(-3)
A 		3.9
(-2.6)
A 		11
B 23.7
(0.8)
A 		4.5
(-3)
A 		10.5
(-1.8)
A 		34.9
(3)
P 		30
C 17.4
(-3)
A 		59
(3)
A 		37.2
(-0.1)
P 		33.2
(-0.7)
A 		42
avr 18.4
(-1.7) 		23.5
(2.6) 		16.9
(-3) 		24
(3) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 72
1 2 3 4 5 6 range
A 4.7
(-3)
A 		38.4
(0.1)
A 		70.3
(3)
P 		32.5
(-0.5)
A 		34.5
(-0.3)
A 		38.4
(0.1)
P 		66
B 25.1
(-2.3)
A 		38
(-1)
P 		76.4
(3)
P 		18.3
(-3)
A 		26.1
(-2.2)
P 		29.4
(-1.9)
P 		58
C 29.9
(0.3)
P 		31.3
(0.9)
P 		21.8
(-3)
A 		33.4
(1.7)
A 		36.6
(3)
P 		25.4
(-1.5)
M 		15
avr 19.9
(-3) 		35.9
(-0.4) 		56.2
(3) 		28.1
(-1.6) 		32.4
(-0.9) 		31.1
(-1.1) 		36
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16
1 2 3 4 range
A 5.1
(3)
A 		1.5
(-1.8)
A 		0.8
(-2.7)
A 		0.6
(-3)
A 		5
B 7.6
(3)
A 		1.1
(-3)
A 		2.4
(-1.8)
A 		7.4
(2.8)
P 		7
C 5.8
(-2.9)
A 		17
(3)
A 		13
(0.9)
P 		5.6
(-3)
A 		11
avr 6.2
(2.1) 		6.5
(3) 		5.4
(-0.3) 		4.5
(-3) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 0.9
(-3)
A 		13.7
(2.3)
A 		15.3
(3)
P 		8.3
(0.1)
A 		10.4
(1)
A 		9.3
(0.5)
P 		14
B 8.7
(-1.3)
A 		12.6
(0.4)
P 		18.5
(3)
P 		4.8
(-3)
A 		10.6
(-0.5)
P 		11
(-0.3)
P 		14
C 11.1
(2.3)
P 		9.6
(0.9)
P 		5.5
(-3)
A 		6.7
(-1.9)
A 		11.8
(3)
P 		8.5
(-0.1)
M 		6
avr 6.9
(-2.7) 		12
(2) 		13.1
(3) 		6.6
(-3) 		10.9
(1) 		9.6
(-0.2) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189817_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9997
Sequence Type Exemplar sequence
Representative Public ID F21D5.4 NCBI
Target Description F21D5.4 /REP_DB=WormBase Gene ID /WP=CE03247 /TR=Q19682 /GB=CAA91034.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=DNA binding protein
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_069103(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069103 NCBI Caenorhabditis elegans F21D5.4 (F21D5.4) mRNA, complete cds. 11/11 None
SNAP00000028041 ENSEMBL cdna:SNAP chromosome:CEL140:IV:8738071:8738942:1 11/11 None
GENEFINDER00000028048 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:8738071:8738942:1 11/11 None
F21D5.4 ENSEMBL cdna:known chromosome:CEL140:IV:8738071:8738942:1 gene:F21D5.4 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
chrIV:8738076-8738948(+) 100.0 100.0
Public Domain and Genome References
Gene Title DNA binding protein
Ensembl F21D5.4
Entrez Gene 184768 Entrez gene
SwissProt Q19682 EMBL-EBI
WormBase CE03247 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA91034 Hypothetical protein F21D5.4 [Caenorhabditis elegans] ref|NP_501504.1| F21D5.4 [Caenorhabditis elegans] 1.0E-146
blast NP_490670 Y48G1C.6 [Caenorhabditis elegans] gb|AAK29891.1| Hypothetical protein Y48G1C.6 [Caenorhabditis elegans] 1.0E-18
blast AAF39819 Hypothetical protein F45D11.6 [Caenorhabditis elegans] ref|NP_493879.2| F45D11.6 [Caenorhabditis elegans] 5.0E-16
Protein Domains
Database ID Description E-Value
scop a.4.1.Centromere-binding All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Centromere-binding 0.540000021457672
Sequence
Target Sequence 
>C. ELEGANS:189817_AT
gcaagagcttgtattcaacgatggagacatttgaagcacgaattagcattcgaatcagaa
ggaaaacaaggagcaaagaggctcggtggagcaggaagaccgctaaagaatgtggaatta
gatgagaaagttgaagattggattgcttcgaaaaacgggaaaatttcgggaaaagatatc
aaggaatatgcgaagaaaattaatggaaatgcagactttaaggcaagtaatggttggctt
caaagatttatgattcgacacggattgataaaagcaagaagttcaagcccaaaaacgcca
tcaactagtgatggcacaacagacaaaacgcttgaagaatcactttttgaactaattaac
agtgatgaatggaagaatatatcagaaggaaatgtttcaggattcctagaagattttaat
gcagaaaatggagaaactagtttaaaagtcgagggaaacaatagtacaaccacagagagt
gaagtaaaacagaaaccaaatgaatcatcgaaattgccagaaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCAAGAGCTTGTATTCAACGATGGA 483 319 163 Antisense
GATGGAGACATTTGAAGCACGAATT 436 407 182 Antisense
GGAGCAAAGAGGCTCGGTGGAGCAG 205 519 232 Antisense
GGTGGAGCAGGAAGACCGCTAAAGA 384 499 247 Antisense
AGATTGGATTGCTTCGAAAAACGGG 435 61 297 Antisense
AAGGCAAGTAATGGTTGGCTTCAAA 298 159 382 Antisense
AAAGATTTATGATTCGACACGGATT 463 121 404 Antisense
GTTCAAGCCCAAAAACGCCATCAAC 649 445 443 Antisense
GATGGCACAACAGACAAAACGCTTG 511 405 472 Antisense
GAGGGAAACAATAGTACAACCACAG 116 401 613 Antisense
ATGAATCATCGAAATTGCCAGAAAT 696 43 662 Antisense
Sequence Source Affymetrix Proprietary Database