[Home] | [Total List]

[188414_at]

Description Y110A7A.13 /REP_DB=WormBase Gene ID /WP=CE23244 /GEN=chp-1 /TR=Q9U4A6 /GB=AAF60417.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 55      6grp_high1_10_10 > 44      4grp_highest_8_8 > 13      4grp_high_8_8 > 23      6grp_highest_nonorm > 76      6grp_total > 0      4grp_total > 16      6grp_total_sub > Hat      6grp_cgc > 55      6grp_high1_sub > 02      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1089
1 2 3 4 range
A 805
(-3)
P 		1067.5
(-1.5)
P 		1245
(-0.5)
P 		1856.4
(3)
P 		1051
B 794.7
(-3)
P 		1088.6
(-1.2)
P 		1220.6
(-0.4)
P 		1770.5
(3)
P 		976
C 798.4
(-3)
P 		1038.1
(-1.7)
P 		1244.5
(-0.5)
P 		1884
(3)
P 		1086
avr 799.4
(-3) 		1064.7
(-1.5) 		1236.7
(-0.5) 		1837
(3) 		1038

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 477
1 2 3 4 5 6 range
A 927.2
(-2.6)
P 		1018.9
(1.8)
P 		918
(-3)
P 		995.3
(0.7)
P 		1044.7
(3)
P 		1032.9
(2.4)
P 		127
B 1047.1
(-1)
P 		1164.7
(1.6)
P 		1052.6
(-0.8)
P 		1216.5
(2.8)
P 		954.1
(-3)
P 		1227.2
(3)
P 		273
C 810.6
(-3)
P 		1287.2
(3)
P 		1032.8
(-0.2)
P 		932.8
(-1.5)
P 		889.4
(-2)
P 		1158.6
(1.4)
P 		477
avr 928.3
(-3) 		1156.9
(3) 		1001.1
(-1.1) 		1048.2
(0.1) 		962.7
(-2.1) 		1139.6
(2.5) 		229
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 202
1 2 3 4 range
A 293.1
(0.9)
P 		231.7
(-3)
P 		325.5
(3)
P 		271.7
(-0.4)
P 		94
B 253.4
(-3)
P 		268.9
(-2.2)
P 		282.8
(-1.6)
P 		377.3
(3)
P 		124
C 264.3
(-3)
P 		298.5
(-1.8)
P 		433.7
(3)
P 		317.7
(-1.1)
P 		169
avr 270.3
(-2.7) 		266.4
(-3) 		347.3
(3) 		322.2
(1.1) 		81

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 287
1 2 3 4 5 6 range
A 170.9
(-3)
P 		362.4
(3)
P 		199.9
(-2.1)
P 		252.4
(-0.4)
P 		315.2
(1.5)
P 		251.5
(-0.5)
P 		192
B 364.3
(0.2)
P 		387.7
(0.9)
P 		255.6
(-3)
P 		322.2
(-1)
P 		387.7
(0.9)
P 		457.6
(3)
P 		202
C 300.5
(0.3)
P 		392.8
(3)
P 		262.9
(-0.8)
P 		187.6
(-3)
P 		287.8
(-0.1)
P 		387.8
(2.9)
P 		205
avr 278.6
(-1.3) 		381
(3) 		239.5
(-3) 		254.1
(-2.4) 		330.2
(0.8) 		365.6
(2.3) 		142
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188414_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.904
Sequence Type Exemplar sequence
Representative Public ID Y110A7A.13 NCBI
Target Description Y110A7A.13 /REP_DB=WormBase Gene ID /WP=CE23244 /GEN=chp-1 /TR=Q9U4A6 /GB=AAF60417.1 /SUBMIT=ST.LOUIS /CHR=1 /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_059118(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059118 NCBI Caenorhabditis elegans CHORD protein family member (chp-1) (chp-1) mRNA, complete cds. 11/11 None
SNAP00000029202 ENSEMBL cdna:SNAP chromosome:CEL140:I:5103810:5104914:-1 11/11 None
GENEFINDER00000029234 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:5103810:5104914:-1 11/11 None
Y110A7A.13 ENSEMBL cdna:known chromosome:CEL140:I:5103634:5104915:-1 gene:Y110A7A.13 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:5103809-5104914(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol chp-1
Ensembl Y110A7A.13
Entrez Gene 172138 Entrez gene
SwissProt Q9U4A6 EMBL-EBI
WormBase CE23244 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:248379_AT RAR1 disease resistance protein (RAR1) at
CANINE_2:CFA.17691.1.S1_AT similar to cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1 cfa
CANINE_2:CFAAFFX.23762.1.S1_AT similar to cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1 cfa
CANINE_2:CFAAFFX.7350.1.S1_S_AT similar to cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1 cfa
DROSOPHILA_2:1628351_AT dm
DROSGENOME1:150490_AT dm
CHICKEN:GGA.14419.1.S1_S_AT cysteine and histidine-rich domain (CHORD)-containing 1 gga
HG-U133_PLUS_2:218566_S_AT cysteine and histidine-rich domain (CHORD)-containing 1 hs
HG-U133A:218566_S_AT cysteine and histidine-rich domain (CHORD)-containing 1 hs
HG-FOCUS:218566_S_AT cysteine and histidine-rich domain (CHORD)-containing 1 hs
HG-U133A_2:218566_S_AT cysteine and histidine-rich domain (CHORD)-containing 1 hs
HU35KSUBA:RC_AA441792_AT cysteine and histidine-rich domain (CHORD)-containing 1 hs
U133_X3P:G6912303_3P_A_AT cysteine and histidine-rich domain (CHORD)-containing 1 hs
HG-U95B:43034_R_AT cysteine and histidine-rich domain (CHORD)-containing 1 hs
HG-U95B:45570_R_AT cysteine and histidine-rich domain (CHORD)-containing 1 hs
HU35KSUBC:RC_AA417345_AT Cysteine and histidine-rich domain (CHORD)-containing 1 hs
U133_X3P:HS.312323.0.A1_3P_AT Cysteine and histidine-rich domain (CHORD)-containing 1 hs
HG-U133_PLUS_2:239436_AT Cysteine and histidine-rich domain (CHORD)-containing 1 hs
HG-U133B:239436_AT Cysteine and histidine-rich domain (CHORD)-containing 1 hs
HG-U95B:55185_AT Cysteine and histidine-rich domain (CHORD)-containing 1 hs
HG-U95D:92074_AT Cysteine and histidine-rich domain (CHORD)-containing 1 hs
HU35KSUBC:RC_N63366_AT Cysteine and histidine-rich domain (CHORD)-containing 1 hs
MG-U74AV2:160330_AT cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1 mm
MU11KSUBA:AA176016_S_AT cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1 mm
MG-U74AV2:95050_AT cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1 mm
MOE430A:1460645_AT cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1 mm
MOUSE430A_2:1460645_AT cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1 mm
MOUSE430_2:1460645_AT cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1 mm
MU19KSUBB:TC31007_AT Cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1, mRNA (cDNA clone MGC:25941 IMAGE:4236535) mm
MU19KSUBC:TC36545_AT Cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1, mRNA (cDNA clone MGC:25941 IMAGE:4236535) mm
MU19KSUBC:TC36545_G_AT Cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1, mRNA (cDNA clone MGC:25941 IMAGE:4236535) mm
MU19KSUBC:TC37159_AT Cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1, mRNA (cDNA clone MGC:25941 IMAGE:4236535) mm
RG-U34A:RC_AA892238_AT cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1 (predicted) rn
RAE230A:1383160_AT cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1 (predicted) rn
RAT230_2:1383160_AT cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1 (predicted) rn
Protein Similarities
Method ID Description E-Value
blast AAF60417 Chord protein protein 1 [Caenorhabditis elegans] ref|NP_491519.1| CHORD protein family member (chp-1) [Caenorhabditis elegans] gb|AAF18435.1| CHORD containing protein [Caenorhabditis elegans] 0.0
blast CAE65729 Hypothetical protein CBG10812 [Caenorhabditis briggsae] 1.0E-173
blast XP_395533 PREDICTED: similar to CG6198-PA [Apis mellifera] 4.0E-57
Protein Domains
Database ID Description E-Value
Pfam IPR007052 EMBL-EBI CS domain 2.0E-45
Pfam IPR007051 EMBL-EBI CHORD 3.5E-49
Pfam IPR007051 EMBL-EBI CHORD 7.8E-46
Sequence
Target Sequence 
>C. ELEGANS:188414_AT
cctggagcaaccgcagctattgagaaaaagctgaaagaaatatctgaagctgctcaaagt
gcggatattcaaattggcgccccatgtcgaaacaatggatgttctactgaattcgatgga
tcgaaaaacaaggaaaactgtcagcatcaccctggagctgccattttccacgaaggaatg
aagtattggtcgtgttgtaacaagaaaacttctaattttggagctttccttgagcaagtg
ggctgcacttcaggcgaacataagttcagaaataatgaaattgtcagcaaattccgagaa
gattggttttcgagcaatggatttgtcaccatcaacgtgtattgtagaggtgctctaccc
gaaaccgcaaacatcgtttccgatggtcacaccgttcgagtgagtatgaagcacggattt
ggaaatgcaagcgtggatctcgattacgatttatgggatgaagttattcccgaggaaagt
cgtgttgtcattggcgaaagaaaggtcgaaatttcattgaaacaaaaacacggaaccgga
tggcctcgtctcaaatttgatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCTGGAGCAACCGCAGCTATTGAGA 75 267 382 Antisense
TCAAATTGGCGCCCCATGTCGAAAC 366 627 450 Antisense
AGGAAAACTGTCAGCATCACCCTGG 164 55 512 Antisense
GAGCTGCCATTTTCCACGAAGGAAT 221 385 536 Antisense
GGAGCTTTCCTTGAGCAAGTGGGCT 611 519 601 Antisense
TGGGCTGCACTTCAGGCGAACATAA 629 553 620 Antisense
GGATTTGTCACCATCAACGTGTATT 107 511 700 Antisense
CTCTACCCGAAACCGCAAACATCGT 510 223 734 Antisense
TCCGATGGTCACACCGTTCGAGTGA 227 593 760 Antisense
GCAAGCGTGGATCTCGATTACGATT 6 321 808 Antisense
GGATGGCCTCGTCTCAAATTTGATC 197 515 919 Antisense
Sequence Source Affymetrix Proprietary Database