[Home] | [Total List]

[177622_at]

Description T06E4.1 /REP_DB=WormBase Gene ID /WP=CE06368 /TR=Q22257 /GB=CAA94789.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 77      4grp_total > 59      6grp_cgc > 49      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 198
1 2 3 4 range
A 113
(1.8)
A 		138.4
(3)
A 		131.9
(2.7)
A 		9.6
(-3)
A 		129
B 125
(0.1)
A 		141.2
(0.6)
A 		207.7
(3)
A 		39.4
(-3)
A 		168
C 129.1
(2.9)
A 		130.9
(3)
A 		126.9
(2.7)
A 		43.2
(-3)
A 		88
avr 122.4
(1.4) 		136.8
(2.1) 		155.5
(3) 		30.7
(-3) 		125

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 409
1 2 3 4 5 6 range
A 54.7
(-3)
A 		160
(-0.3)
P 		99.4
(-1.8)
A 		123.1
(-1.2)
P 		192
(0.5)
P 		286.8
(3)
P 		232
B 88.7
(-2.6)
P 		67.3
(-3)
A 		92.6
(-2.5)
A 		113.9
(-2.1)
A 		127.5
(-1.8)
P 		380
(3)
P 		313
C 125.9
(-2.2)
A 		83.3
(-2.8)
P 		70.9
(-3)
A 		114.7
(-2.3)
A 		181.7
(-1.3)
P 		463.3
(3)
P 		392
avr 89.8
(-3) 		103.5
(-2.7) 		87.6
(-3) 		117.2
(-2.4) 		167.1
(-1.4) 		376.7
(3) 		289
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 47
1 2 3 4 range
A 41.2
(3)
A 		30
(1.3)
A 		34.5
(2)
A 		1.4
(-3)
A 		40
B 39.9
(1.8)
A 		34.9
(1)
A 		48.1
(3)
A 		8.4
(-3)
A 		40
C 42.7
(2.8)
A 		37.6
(1.9)
A 		44.2
(3)
A 		7.3
(-3)
A 		37
avr 41.3
(2.8) 		34.2
(1.7) 		42.3
(3) 		5.7
(-3) 		37

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 145
1 2 3 4 5 6 range
A 10.1
(-3)
A 		56.9
(1.7)
P 		21.6
(-1.8)
A 		31.2
(-0.9)
P 		57.9
(1.8)
P 		69.8
(3)
P 		60
B 30.9
(-2.6)
P 		22.4
(-3)
A 		22.5
(-3)
A 		30.2
(-2.6)
A 		51.8
(-1.5)
P 		141.7
(3)
P 		119
C 46.7
(-1.7)
A 		25.4
(-2.7)
P 		18.1
(-3)
A 		23.1
(-2.8)
A 		58.8
(-1.2)
P 		155.1
(3)
P 		137
avr 29.2
(-2.5) 		34.9
(-2.2) 		20.7
(-3) 		28.2
(-2.6) 		56.2
(-0.9) 		122.2
(3) 		102
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177622_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12252
Sequence Type Exemplar sequence
Representative Public ID T06E4.1 NCBI
Target Description T06E4.1 /REP_DB=WormBase Gene ID /WP=CE06368 /TR=Q22257 /GB=CAA94789.1 /SUBMIT=HINXTON /CHR=5 /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_073088(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073088 NCBI Caenorhabditis elegans HoloCentric chromosome binding Protein family member (hcp-2) (hcp-2) mRNA, complete cds. 11/11 A 
SNAP00000007444 ENSEMBL cdna:SNAP chromosome:CEL140:V:9643239:9652688:1 11/11 None
GENEFINDER00000007457 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:9648445:9652688:1 11/11 None
T06E4.1 ENSEMBL cdna:known chromosome:CEL140:V:9648424:9652881:1 gene:T06E4.1 11/11 A 
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:9648465-9652688(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol hcp-2
Ensembl T06E4.1
Entrez Gene 179353 Entrez gene
SwissProt Q22257 EMBL-EBI
WormBase CE06368 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA94789 Hypothetical protein T06E4.1 [Caenorhabditis elegans] ref|NP_505489.1| HoloCentric chromosome binding Protein family member (hcp-2) [Caenorhabditis elegans] 0.0
blast CAE70092 Hypothetical protein CBG16534 [Caenorhabditis briggsae] 0.0
blast AAC19259 Holocentric chromosome binding protein protein 1 [Caenorhabditis elegans] ref|NP_504677.1| HoloCentric chromosome binding Protein family member (hcp-1) [Caenorhabditis elegans] 1.0E-141
Sequence
Target Sequence 
>C. ELEGANS:177622_AT
gacccaagccatgaatgtcggtacactgactgaatcgttgtctcagttacaagtacaact
tcaacaaatgaatgagaagctggttgcatcggacaaatacgcagttgaagtggagcagca
agctcagcatgatataactgtgatccaggaagagaagaacgagcaatcagcggctctaga
agaagcactatccaaaatagcggaacttgaggagcaactgggaagagcccagaaggagat
tgtacgactcgagaaggtgtgtgacgatttcgacgacgttgaacgagagctgaaggatgc
catctcgaagcttcaatctga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACCCAAGCCATGAATGTCGGTACA 455 381 3288 Antisense
GGTACACTGACTGAATCGTTGTCTC 86 505 3307 Antisense
GAAGCTGGTTGCATCGGACAAATAC 575 341 3363 Antisense
AATACGCAGTTGAAGTGGAGCAGCA 468 169 3383 Antisense
AAGAACGAGCAATCAGCGGCTCTAG 277 153 3442 Antisense
GCGGCTCTAGAAGAAGCACTATCCA 482 293 3457 Antisense
GAGCCCAGAAGGAGATTGTACGACT 249 385 3512 Antisense
GTACGACTCGAGAAGGTGTGTGACG 230 459 3529 Antisense
GACGATTTCGACGACGTTGAACGAG 286 379 3550 Antisense
GAACGAGAGCTGAAGGATGCCATCT 654 347 3568 Antisense
ATGCCATCTCGAAGCTTCAATCTGA 465 41 3584 Antisense
Sequence Source Affymetrix Proprietary Database