[Home] | [Total List]

[172825_x_at] histone H4

Description F45F2.2 /REP_DB=WormBase Gene ID /WP=CE10520 /GEN=his-39 /TR=Q22979 /GB=AAC48034.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=histone H4
Cluster 6grp_highest_10_10 > 78      6grp_high1_10_10 > 87      4grp_highest_8_8 > 10      4grp_high_8_8 > 54      6grp_highest_nonorm > 95      6grp_total > 87      4grp_total > 57      6grp_highest_sub > In      6grp_cgc > 58      6grp_high1_sub > In      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 908
1 2 3 4 range
A 378.6
(-2.8)
P 		1020.8
(1.6)
P 		1222.1
(3)
P 		346.9
(-3)
P 		875
B 368.8
(-2.6)
P 		925.3
(1.4)
P 		1155.8
(3)
P 		314.3
(-3)
P 		842
C 391.8
(-3)
P 		976.9
(1.9)
P 		1104.5
(3)
P 		395.6
(-3)
P 		713
avr 379.7
(-2.8) 		974.3
(1.6) 		1160.8
(3) 		352.3
(-3) 		809

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 861
1 2 3 4 5 6 range
A 474.1
(-2.6)
P 		424.6
(-3)
P 		451.4
(-2.8)
P 		599.9
(-1.7)
P 		705.1
(-0.9)
P 		1208.2
(3)
P 		784
B 429.2
(-3)
P 		431.3
(-3)
P 		465.3
(-2.7)
P 		531
(-2.2)
P 		800.3
(0)
P 		1166.9
(3)
P 		738
C 409.8
(-3)
P 		499.4
(-2.4)
P 		574.3
(-1.9)
P 		678.9
(-1.1)
P 		754
(-0.6)
P 		1270.4
(3)
P 		861
avr 437.7
(-3) 		451.8
(-2.9) 		497
(-2.5) 		603.3
(-1.7) 		753.1
(-0.6) 		1215.2
(3) 		778
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 334
1 2 3 4 range
A 137.8
(-1.1)
P 		221.6
(0.8)
P 		319.5
(3)
P 		50.8
(-3)
P 		269
B 117.6
(-1.5)
P 		228.5
(1.8)
P 		267.8
(3)
P 		67
(-3)
P 		201
C 129.7
(-1.8)
P 		280.9
(1)
P 		384.9
(3)
P 		66.7
(-3)
P 		318
avr 128.4
(-1.5) 		243.7
(1.2) 		324.1
(3) 		61.5
(-3) 		263

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 348
1 2 3 4 5 6 range
A 87.4
(-3)
P 		151
(-1.2)
P 		98.3
(-2.7)
P 		152.1
(-1.1)
P 		212.8
(0.6)
P 		294.2
(3)
P 		207
B 149.3
(-2.3)
P 		143.6
(-2.4)
P 		113
(-3)
P 		140.6
(-2.5)
P 		325.2
(1)
P 		435.1
(3)
P 		322
C 151.9
(-2.7)
P 		152.4
(-2.7)
P 		146.2
(-2.8)
P 		136.5
(-3)
P 		244
(-0.8)
P 		425.3
(3)
P 		289
avr 129.5
(-2.8) 		149
(-2.3) 		119.2
(-3) 		143.1
(-2.5) 		260.7
(0.2) 		384.9
(3) 		266
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172825_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12517
Sequence Type Exemplar sequence
Representative Public ID F45F2.2 NCBI
Target Description F45F2.2 /REP_DB=WormBase Gene ID /WP=CE10520 /GEN=his-39 /TR=Q22979 /GB=AAC48034.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=histone H4
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_072800(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072800 NCBI Caenorhabditis elegans HIStone family member (his-39) (his-39) mRNA, complete cds. 11/11 None
GENEFINDER00000030783 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8538176:8542202:1 11/11 None
F45F2.2 ENSEMBL cdna:known chromosome:CEL140:V:8538902:8539304:1 gene:F45F2.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_072877 6/11 Cross Hyb Matching Probes A B 
NM_072893 6/11 Cross Hyb Matching Probes A B 
NM_068801 1/11 Cross Hyb Matching Probes A 
NM_072796 5/11 Cross Hyb Matching Probes A B 
NM_072894 6/11 Cross Hyb Matching Probes A B 
NM_069008 1/11 Cross Hyb Matching Probes A B 
NM_074630 4/11 Cross Hyb Matching Probes A B 
NM_072878 6/11 Cross Hyb Matching Probes A B 
NM_069002 1/11 Cross Hyb Matching Probes A B 
SNAP00000000482 1/11 Cross Hyb Matching Probes None
GENEFINDER00000000503 1/11 Cross Hyb Matching Probes None
SNAP00000005172 1/11 Cross Hyb Matching Probes None
GENEFINDER00000005179 1/11 Cross Hyb Matching Probes None
SNAP00000039430 1/11 Cross Hyb Matching Probes None
GENEFINDER00000039441 1/11 Cross Hyb Matching Probes None
SNAP00000015094 6/11 Cross Hyb Matching Probes None
SNAP00000015095 6/11 Cross Hyb Matching Probes None
GENEFINDER00000015150 6/11 Cross Hyb Matching Probes None
GENEFINDER00000015153 6/11 Cross Hyb Matching Probes None
SNAP00000018185 6/11 Cross Hyb Matching Probes None
SNAP00000018186 6/11 Cross Hyb Matching Probes None
GENEFINDER00000018201 6/11 Cross Hyb Matching Probes None
GENEFINDER00000018208 6/11 Cross Hyb Matching Probes None
SNAP00000027914 4/11 Cross Hyb Matching Probes None
GENEFINDER00000027921 4/11 Cross Hyb Matching Probes None
SNAP00000030771 5/11 Cross Hyb Matching Probes None
GENEFINDER00000030780 5/11 Cross Hyb Matching Probes None
F55G1.3 1/11 Cross Hyb Matching Probes A 
F35H10.11 1/11 Cross Hyb Matching Probes A B 
F17E9.9 1/11 Cross Hyb Matching Probes A B 
F45F2.12 5/11 Cross Hyb Matching Probes A B 
F07B7.4 6/11 Cross Hyb Matching Probes A B 
F07B7.11 6/11 Cross Hyb Matching Probes A B 
K06C4.12 6/11 Cross Hyb Matching Probes R A B 
K06C4.4 6/11 Cross Hyb Matching Probes A B 
T10C6.11 4/11 Cross Hyb Matching Probes A B 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:8538623-8539305(+) 97.64 100.0
chrV:8538823-8895518(+) 90.86 90.86
Public Domain and Genome References
Gene Title histone H4
Gene Symbol his-39
Ensembl F45F2.2
Entrez Gene 191681 Entrez gene
SwissProt Q22979 EMBL-EBI
WormBase CE36851 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.27194.1.S1_X_AT similar to testis-specific histone 2b cfa
CHICKEN:GGA.3884.1.S1_AT similar to histone H2B - sipunculid (Sipunculus nudus) gga
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6334 nucleosome assembly inferred from electronic annotation QuickGO AmiGO
7001 chromosome organization and biogenesis (sensu Eukaryota) inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
786 nucleosome inferred from electronic annotation QuickGO AmiGO
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 AAC48025 Hypothetical protein F45F2.1 [Caenorhabditis elegans] ref|NP_505202.1| F45F2.1 [Caenorhabditis elegans] 0.0
blast CAE58370 Hypothetical protein CBG01497 [Caenorhabditis briggsae] 1.0E-136
blast AAC48028 Hypothetical protein F45F2.5 [Caenorhabditis elegans] ref|NP_505196.1| F45F2.5 [Caenorhabditis elegans] 2.0E-55
blast AAC48034 Histone protein 39 [Caenorhabditis elegans] ref|NP_505201.2| HIStone family member (his-39) [Caenorhabditis elegans] 5.0E-55
blast CAB05832 Hypothetical protein ZK131.9 [Caenorhabditis elegans] emb|CAB05830.1| Hypothetical protein ZK131.5 [Caenorhabditis elegans] emb|CAB04061.1| Hypothetical protein F08G2.1 [Caenorhabditis elegans] gb|AAC05103.1| Histone protein 34 [Caenorhabditis elegans] emb|CAA33642.1| histone protein [Caenorhabditis elegans] gb|AAK84525.1| Histone protein 29 [Caenorhabditis elegans] ref|NP_501409.1| HIStone family member (his-34) [Caenorhabditis elegans] ref|NP_501403.1| HIStone family member (his-29) [Caenorhabditis elegans] ref|NP_496897.1| HIStone family member (his-44) [Caenorhabditis elegans] ref|NP_496892.1| HIStone family member (his-11) [Caenorhabditis elegans] ref|NP_496888.1| HIStone family member (his-15) [Caenorhabditis elegans] sp|P04255|H2B1_CAEEL Histone H2B 6.0E-42
blast AAF98225 Histone protein 20 [Caenorhabditis elegans] gb|AAF98230.1| Histone protein 22 [Caenorhabditis elegans] gb|AAC48023.1| Histone protein 8 [Caenorhabditis elegans] ref|NP_505295.1| HIStone family member (his-20) [Caenorhabditis elegans] ref|NP_505197.1| HIStone family member (his-8) [Caenorhabditis elegans] ref|NP_505294.1| HIStone family member (his-22) [Caenorhabditis elegans] sp|Q27894|H2B2_CAEEL Histone H2B 6.0E-42
Protein Domains
Database ID Description E-Value
Pfam IPR007125 EMBL-EBI Histone core 3.9E-47
Pfam IPR004878 EMBL-EBI Protein of unknown function DUF270 1.0E-126
Pfam IPR004878 EMBL-EBI Protein of unknown function DUF270 2.1E-75
Pfam IPR007125 EMBL-EBI Histone core 4.9E-47
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000030783 11 159-181,188-210,236-258,265-287,297-319,377-399,423-445,458-480,507-529,549-571,591-613
Sequence
Target Sequence 
>C. ELEGANS:172825_X_AT
aaagaatcctactccttgtacatcttccgtgtgctcaagcaggttcatccagacactgga
gtctcttccaaggctatgtccatcatgaactcgttcgtcaacgacgtcttcgagcgtatc
gctgctgaggcatctcgtcttgctcactacaacaagagatccaccatctcttctcgcgaa
attcaaactgccgtccgtttgattcttccaggagagcttgccaagaacgccgtctctgag
gga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAGAATCCTACTCCTTGTACATCT 256 123 73 Antisense
ACATCTTCCGTGTGCTCAAGCAGGT 593 105 92 Antisense
GCTCAAGCAGGTTCATCCAGACACT 120 303 105 Antisense
AGACACTGGAGTCTCTTCCAAGGCT 135 73 123 Antisense
GGCTATGTCCATCATGAACTCGTTC 271 537 144 Antisense
GAACTCGTTCGTCAACGACGTCTTC 534 305 159 Antisense
CGTCTTCGAGCGTATCGCTGCTGAG 298 247 177 Antisense
ATCTCGTCTTGCTCACTACAACAAG 49 31 204 Antisense
ACCATCTCTTCTCGCGAAATTCAAA 690 85 235 Antisense
CAAACTGCCGTCCGTTTGATTCTTC 68 193 256 Antisense
TGCCAAGAACGCCGTCTCTGAGGGA 173 587 291 Antisense
Sequence Source Affymetrix Proprietary Database