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[184122_at]

Description M03F8.3 /REP_DB=WormBase Gene ID /WP=CE12376 /TR=O16376 /GB=AAB65909.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 84      6grp_high1_10_10 > 57      4grp_highest_8_8 > 44      4grp_high_8_8 > 24      6grp_highest_nonorm > 82      6grp_total > 58      4grp_total > 39      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 319
1 2 3 4 range
A 401.2
(3)
P 		366
(0.9)
P 		301.5
(-3)
P 		336.2
(-0.9)
P 		100
B 529.4
(3)
P 		210.2
(-3)
P 		308.8
(-1.1)
P 		412.7
(0.8)
P 		319
C 446.8
(3)
P 		278
(-3)
P 		337.5
(-0.9)
P 		301.3
(-2.2)
P 		169
avr 459.1
(3) 		284.7
(-3) 		315.9
(-1.9) 		350.1
(-0.7) 		174

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 198
1 2 3 4 5 6 range
A 324.5
(-1.5)
P 		322.8
(-1.6)
P 		281.7
(-3)
P 		307.1
(-2.1)
P 		339.7
(-1)
P 		452.9
(3)
P 		171
B 391.8
(0.6)
P 		341.4
(-1.2)
P 		291.8
(-3)
P 		314.9
(-2.2)
P 		316.8
(-2.1)
P 		459.9
(3)
P 		168
C 477.7
(3)
P 		307
(-2.2)
P 		337.3
(-1.3)
P 		395.3
(0.5)
P 		280.1
(-3)
P 		378.8
(-0)
P 		198
avr 398
(1.5) 		323.7
(-2) 		303.6
(-3) 		339.1
(-1.3) 		312.2
(-2.6) 		430.5
(3) 		127
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 120
1 2 3 4 range
A 146.1
(3)
P 		79.5
(-1.1)
P 		78.8
(-1.2)
P 		49.2
(-3)
P 		97
B 168.8
(3)
P 		51.9
(-3)
P 		71.5
(-2)
P 		87.9
(-1.2)
P 		117
C 147.9
(3)
P 		79.9
(-1.2)
P 		117.6
(1.1)
P 		50.8
(-3)
P 		97
avr 154.3
(3) 		70.4
(-2.5) 		89.3
(-1.3) 		62.6
(-3) 		92

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 117
1 2 3 4 5 6 range
A 59.8
(-3)
P 		114.8
(3)
P 		61.3
(-2.8)
P 		77.9
(-1)
P 		102.5
(1.7)
P 		110.3
(2.5)
P 		55
B 136.3
(0.9)
P 		113.7
(-0.4)
P 		70.9
(-3)
P 		83.4
(-2.3)
P 		128.7
(0.4)
P 		171.5
(3)
P 		101
C 177.1
(3)
P 		93.7
(-2.1)
P 		85.8
(-2.6)
P 		79.5
(-3)
P 		90.6
(-2.3)
P 		126.8
(-0.1)
P 		98
avr 124.4
(1.9) 		107.4
(0.3) 		72.7
(-3) 		80.3
(-2.3) 		107.3
(0.3) 		136.2
(3) 		64
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184122_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12071
Sequence Type Exemplar sequence
Representative Public ID M03F8.3 NCBI
Target Description M03F8.3 /REP_DB=WormBase Gene ID /WP=CE12376 /TR=O16376 /GB=AAB65909.1 /SUBMIT=ST.LOUIS /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_072146(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072146 NCBI Caenorhabditis elegans M03F8.3 (M03F8.3) mRNA, complete cds. 11/11 None
SNAP00000043838 ENSEMBL cdna:SNAP chromosome:CEL140:V:5942627:5945770:1 11/11 None
GENEFINDER00000043853 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:5939982:5945770:1 11/11 None
M03F8.3 ENSEMBL cdna:known chromosome:CEL140:V:5942618:5945946:1 gene:M03F8.3 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:5942626-5945770(+) 96.24 100.0
Public Domain and Genome References
Gene Title
Ensembl M03F8.3
Entrez Gene 178979 Entrez gene
SwissProt O16376 EMBL-EBI
WormBase CE28622 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:249269_AT crooked neck protein, putative / cell cycle protein, putative at
CANINE:1592551_AT similar to Crooked neck-like protein 1 (Crooked neck homolog) (hCrn) cfa
CANINE:1583314_AT similar to Crooked neck-like protein 1 (Crooked neck homolog) (hCrn) cfa
CANINE_2:CFA.10733.1.S1_AT similar to Crooked neck-like protein 1 (Crooked neck homolog) (hCrn) cfa
CANINE_2:CFAAFFX.8952.1.S1_S_AT similar to Crooked neck-like protein 1 (Crooked neck homolog) (hCrn) cfa
DROSOPHILA_2:1635659_AT crooked neck dm
DROSGENOME1:154046_AT crooked neck dm
CHICKEN:GGA.13278.1.S1_AT Crn, crooked neck-like 1 (Drosophila) gga
CHICKEN:GGAAFFX.22581.2.S1_S_AT Crn, crooked neck-like 1 (Drosophila) gga
HG-U133_PLUS_2:219913_S_AT Crn, crooked neck-like 1 (Drosophila) hs
HG-U133A:219913_S_AT Crn, crooked neck-like 1 (Drosophila) hs
HG-U133A_2:219913_S_AT Crn, crooked neck-like 1 (Drosophila) hs
HU35KSUBA:RC_AA262032_AT Crn, crooked neck-like 1 (Drosophila) hs
U133_X3P:G11072090_3P_A_AT Crn, crooked neck-like 1 (Drosophila) hs
HG-U95C:65609_AT Crn, crooked neck-like 1 (Drosophila) hs
HG-U95E:77990_AT Crn, crooked neck-like 1 (Drosophila) hs
MU11KSUBA:AA216808_F_AT Crn, crooked neck-like 1 (Drosophila) mm
MU11KSUBA:AA216808_R_AT Crn, crooked neck-like 1 (Drosophila) mm
MG-U74BV2:114757_AT Crn, crooked neck-like 1 (Drosophila) mm
MG-U74AV2:160751_I_AT Crn, crooked neck-like 1 (Drosophila) mm
MG-U74CV2:168842_AT Crn, crooked neck-like 1 (Drosophila) mm
MOE430A:1420849_AT Crn, crooked neck-like 1 (Drosophila) mm
MOUSE430A_2:1420849_AT Crn, crooked neck-like 1 (Drosophila) mm
MOUSE430_2:1420849_AT Crn, crooked neck-like 1 (Drosophila) mm
MOE430A:1420850_AT Crn, crooked neck-like 1 (Drosophila) mm
MOUSE430A_2:1420850_AT Crn, crooked neck-like 1 (Drosophila) mm
MOUSE430_2:1420850_AT Crn, crooked neck-like 1 (Drosophila) mm
RAE230A:1387300_AT crooked neck protein rn
RAT230_2:1387300_AT crooked neck protein rn
RG-U34B:RC_AI029952_AT Crooked neck protein rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6396 RNA processing inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_504547 M03F8.3 [Caenorhabditis elegans] gb|AAB65909.2| Hypothetical protein M03F8.3 [Caenorhabditis elegans] 0.0
blast CAE64540 Hypothetical protein CBG09283 [Caenorhabditis briggsae] 0.0
blast NP_957240 similar to crooked neck protein [Danio rerio] gb|AAH44369.1| Similar to crooked neck protein [Danio rerio] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003107 EMBL-EBI RNA-processing protein, HAT helix 3.2E-6
Pfam IPR003107 EMBL-EBI RNA-processing protein, HAT helix 1.0E-20
Pfam IPR003107 EMBL-EBI RNA-processing protein, HAT helix 2.1E-5
Pfam IPR003107 EMBL-EBI RNA-processing protein, HAT helix 3.2E-6
Pfam IPR003107 EMBL-EBI RNA-processing protein, HAT helix 1.0E-20
Pfam IPR003107 EMBL-EBI RNA-processing protein, HAT helix 2.1E-5
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000043853 6 4-26,38-60,80-102,122-144,180-202,233-255
Sequence
Target Sequence 
>C. ELEGANS:184122_AT
gagatctctatgaaaccctactccaacgaacaaatcacattaaagtctggatttcgatgg
ctgaatttgaacaaaccattggaaactttgaaggggcgcgtaaggcgtttgaaagagcta
atcaatcattggagaatgccgagaaagaggaacgattgatgttactggaagcatggaaag
aatgtgaaacgaagagcggtgatcaagaagcgttaaagagagttgaaactatgatgcctc
gtagagtcaaaaaacgacgtcaaatacaaactgaagatggtgtcgatgcaggatgggagg
aatactttgactacatattcccacaagatcaagcagcaaaaggcagtttcaaacttctcg
aagcagccgccagatggaagagggaaagagaagaagctgcagcacgagcagctcaggaac
ttgatgctcctattccagaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGATCTCTATGAAACCCTACTCCA 281 397 1688 Antisense
ACCCTACTCCAACGAACAAATCACA 593 85 1702 Antisense
TTAAAGTCTGGATTTCGATGGCTGA 167 683 1727 Antisense
TGAAGGGGCGCGTAAGGCGTTTGAA 687 371 1776 Antisense
GAAACTATGATGCCTCGTAGAGTCA 463 357 1912 Antisense
GATGGTGTCGATGCAGGATGGGAGG 631 407 1963 Antisense
ATACTTTGACTACATATTCCCACAA 426 23 1989 Antisense
TATTCCCACAAGATCAAGCAGCAAA 519 663 2003 Antisense
CTCGAAGCAGCCGCCAGATGGAAGA 508 233 2044 Antisense
GCAGCACGAGCAGCTCAGGAACTTG 46 313 2086 Antisense
GAACTTGATGCTCCTATTCCAGAAG 353 351 2104 Antisense
Sequence Source Affymetrix Proprietary Database