[Home] | [Total List]

[190650_at]

Description F40F9.7 /REP_DB=WormBase Gene ID /WP=CE05856 /TR=Q20237 /GB=CAA94762.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Histone H2A-like protein
Cluster 6grp_highest_10_10 > 77      6grp_high1_10_10 > 77      4grp_highest_8_8 > 57      4grp_high_8_8 > 34      6grp_highest_nonorm > 95      6grp_total > 77      4grp_total > 46      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 350
1 2 3 4 range
A 791.4
(3)
P 		544.1
(-1.9)
P 		491.6
(-3)
P 		529.1
(-2.2)
P 		300
B 675
(1.6)
P 		710.5
(3)
P 		555.2
(-3)
P 		673.2
(1.6)
P 		155
C 841.8
(3)
P 		676.7
(-0.4)
P 		552.5
(-3)
P 		561.8
(-2.8)
P 		289
avr 769.4
(3) 		643.8
(-0.2) 		533.1
(-3) 		588
(-1.6) 		236

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 682
1 2 3 4 5 6 range
A 486.7
(-2.5)
P 		769.9
(0)
P 		426.2
(-3)
P 		630.6
(-1.2)
P 		638.9
(-1.1)
P 		1107.7
(3)
P 		682
B 543.4
(-1.7)
P 		434.9
(-3)
P 		617.5
(-0.9)
P 		692
(-0)
P 		556.2
(-1.6)
P 		955.6
(3)
P 		521
C 706.7
(-0.5)
P 		468.9
(-3)
P 		586.9
(-1.7)
P 		540.8
(-2.2)
P 		663.3
(-0.9)
P 		1029.7
(3)
P 		561
avr 578.9
(-2.6) 		557.9
(-2.8) 		543.5
(-3) 		621.1
(-2) 		619.5
(-2.1) 		1031
(3) 		488
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 211
1 2 3 4 range
A 288.1
(3)
P 		118.1
(-1.8)
P 		128.5
(-1.5)
P 		77.4
(-3)
P 		211
B 215.3
(3)
P 		175.5
(0.2)
P 		128.7
(-3)
P 		143.5
(-2)
P 		87
C 278.7
(3)
P 		194.6
(0.3)
P 		192.6
(0.2)
P 		94.7
(-3)
P 		184
avr 260.7
(3) 		162.7
(-0.8) 		149.9
(-1.3) 		105.2
(-3) 		156

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 267
1 2 3 4 5 6 range
A 89.7
(-3)
P 		273.8
(3)
P 		92.8
(-2.9)
P 		159.9
(-0.7)
P 		192.8
(0.4)
P 		269.7
(2.9)
P 		184
B 189.1
(-1.7)
P 		144.8
(-3)
P 		150
(-2.9)
P 		183.3
(-1.9)
P 		226
(-0.7)
P 		356.3
(3)
P 		212
C 261.9
(0.9)
P 		143.1
(-2.1)
P 		149.4
(-2)
P 		108.8
(-3)
P 		214.6
(-0.3)
P 		344.7
(3)
P 		236
avr 180.2
(-1.5) 		187.2
(-1.2) 		130.7
(-3) 		150.7
(-2.4) 		211.1
(-0.5) 		323.6
(3) 		193
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190650_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11838
Sequence Type Exemplar sequence
Representative Public ID F40F9.7 NCBI
Target Description F40F9.7 /REP_DB=WormBase Gene ID /WP=CE05856 /TR=Q20237 /GB=CAA94762.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Histone H2A-like 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_001028736(11), NM_001028735(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028736 NCBI Caenorhabditis elegans F40F9.7b (F40F9.7) mRNA, complete cds. 11/11 None
NM_001028735 NCBI Caenorhabditis elegans F40F9.7a (F40F9.7) mRNA, complete cds. 11/11 None
SNAP00000009257 ENSEMBL cdna:SNAP chromosome:CEL140:V:9735102:9736172:1 11/11 None
GENEFINDER00000009266 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:9732337:9736172:1 11/11 None
F40F9.7b.1 ENSEMBL cdna:known chromosome:CEL140:V:9732697:9736172:1 gene:F40F9.7 11/11 None
F40F9.7a.3 ENSEMBL cdna:known chromosome:CEL140:V:9734535:9736600:1 gene:F40F9.7 11/11 None
F40F9.7a.2 ENSEMBL cdna:known chromosome:CEL140:V:9734536:9736600:1 gene:F40F9.7 11/11 None
F40F9.7a.1 ENSEMBL cdna:known chromosome:CEL140:V:9734541:9736600:1 gene:F40F9.7 11/11 None
F40F9.7b.2 ENSEMBL cdna:known chromosome:CEL140:V:9734541:9736172:1 gene:F40F9.7 11/11 None
F40F9.7b.3 ENSEMBL cdna:known chromosome:CEL140:V:9734541:9736172:1 gene:F40F9.7 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:9734746-9736172(+) 100.0 100.0
Public Domain and Genome References
Ensembl F40F9.7
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA94762 Hypothetical protein F40F9.7a [Caenorhabditis elegans] ref|NP_001023906.1| F40F9.7a [Caenorhabditis elegans] 1.0E-153
blast CAA94762 Hypothetical protein F40F9.7a [Caenorhabditis elegans] ref|NP_001023906.1| F40F9.7a [Caenorhabditis elegans] 1.0E-137
blast CAD82914 Hypothetical protein F40F9.7b [Caenorhabditis elegans] ref|NP_001023907.1| F40F9.7b [Caenorhabditis elegans] 1.0E-137
Protein Domains
Database ID Description E-Value
Pfam IPR003958 EMBL-EBI Transcription factor CBF/NF-Y/archaeal histone 2.5E-22
Pfam IPR003958 EMBL-EBI Transcription factor CBF/NF-Y/archaeal histone 2.5E-22
Pfam IPR003958 EMBL-EBI Transcription factor CBF/NF-Y/archaeal histone 2.5E-22
Sequence
Target Sequence 
>C. ELEGANS:190650_AT
catgaagcaggcggttctcaacactccacacttttcatttctagaatcagtcttcaaaga
tgttgcacttccacagcaagcatctgaattgaatactgcacgtaccggcatgacattgag
aggacagcaaatgctccaagagcaacaaaattcagattttgctagtgcaattcttgccaa
tgcgcagatgcaaatgatgcaaatggatcaacaagcattgaaacaagaagatggaactat
ttctccttatttagttgatccgcaatccccagcagcaccacttccactttatcttcaagg
gattccatccaattatccagtagttcaagaactcacagccaccgtaccactttctcctag
cactccgacaactcaactcgtaaatggtatgctaggaatgctcaaatactcgaaaaaaga
ttctgaaggacaacgtctcacaggattaaaacgagcatctactgatggtgatggagaaga
cagaccaaagcgaggacgccc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CATGAAGCAGGCGGTTCTCAACACT 26 211 381 Antisense
GATGTTGCACTTCCACAGCAAGCAT 5 411 439 Antisense
GAATACTGCACGTACCGGCATGACA 222 327 471 Antisense
CAATTCTTGCCAATGCGCAGATGCA 219 181 548 Antisense
TTCTCCTTATTTAGTTGATCCGCAA 280 693 621 Antisense
ACCACTTCCACTTTATCTTCAAGGG 601 85 657 Antisense
ATTCCATCCAATTATCCAGTAGTTC 366 7 682 Antisense
GTAGTTCAAGAACTCACAGCCACCG 247 457 700 Antisense
CACTCCGACAACTCAACTCGTAAAT 62 199 741 Antisense
AAGGACAACGTCTCACAGGATTAAA 679 159 806 Antisense
AAGACAGACCAAAGCGAGGACGCCC 99 151 857 Antisense
Sequence Source Affymetrix Proprietary Database