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[175768_at] LIM homeobox protein

Description g8572735 /REP_DB=GenBank Identifier /GB=AF244368.1 /PROTEIN_GB=AAF77181.1 /CHR=X /FEA=Mapped Transcript /DEF=LIM homeobox protein CEH-14
Cluster 6grp_total > 16      4grp_total > 21      6grp_cgc > 12      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 101
1 2 3 4 range
A 55.2
(-0.2)
P 		29.9
(-1.7)
A 		8.2
(-3)
A 		109.1
(3)
P 		101
B 86.5
(3)
P 		57.9
(-0)
P 		29.4
(-3)
A 		70
(1.3)
P 		57
C 79.6
(1)
P 		69
(-0.5)
P 		52.1
(-3)
M 		93.4
(3)
P 		41
avr 73.8
(1.3) 		52.3
(-0.8) 		29.9
(-3) 		90.8
(3) 		61

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 88
1 2 3 4 5 6 range
A 111.2
(3)
P 		63.1
(-0.3)
P 		63.2
(-0.3)
P 		23.2
(-3)
A 		57.3
(-0.7)
P 		35.4
(-2.2)
A 		88
B 78
(3)
P 		58.2
(0.1)
P 		36.8
(-3)
A 		63.4
(0.9)
A 		38.4
(-2.8)
A 		53.7
(-0.5)
P 		41
C 52
(2)
P 		56.8
(3)
P 		26.7
(-3)
A 		27.3
(-2.9)
A 		34.1
(-1.5)
A 		43.4
(0.3)
P 		30
avr 80.4
(3) 		59.4
(0) 		42.2
(-2.4) 		38
(-3) 		43.3
(-2.3) 		44.2
(-2.1) 		42
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 25
1 2 3 4 range
A 20.1
(3)
P 		6.5
(-1.6)
A 		2.2
(-3)
A 		16
(1.6)
P 		18
B 27.6
(3)
P 		14.3
(-0.8)
P 		6.8
(-3)
A 		14.9
(-0.7)
P 		21
C 26.3
(3)
P 		19.8
(-0.7)
P 		18.2
(-1.6)
M 		15.7
(-3)
P 		11
avr 24.7
(3) 		13.5
(-1.3) 		9.1
(-3) 		15.5
(-0.5) 		16

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 22
1 2 3 4 5 6 range
A 20.5
(2.3)
P 		22.4
(3)
P 		13.8
(-0.1)
P 		5.9
(-3)
A 		17.3
(1.1)
P 		8.6
(-2)
A 		17
B 27.1
(3)
P 		19.4
(0.5)
P 		8.9
(-3)
A 		16.8
(-0.4)
A 		15.6
(-0.8)
A 		20
(0.7)
P 		18
C 19.3
(3)
P 		17.3
(2.1)
P 		6.8
(-2.4)
A 		5.5
(-3)
A 		11
(-0.6)
A 		14.5
(0.9)
P 		14
avr 22.3
(3) 		19.7
(1.8) 		9.8
(-2.8) 		9.4
(-3) 		14.6
(-0.6) 		14.4
(-0.7) 		13
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175768_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19977
Sequence Type Exemplar sequence
Representative Public ID 8572735 NCBI
Target Description g8572735 /REP_DB=GenBank Identifier /GB=AF244368.1 /PROTEIN_GB=AAF77181.1 /CHR=X /FEA=Mapped Transcript /DEF=LIM homeobox protein CEH-14
Cluster Evidence This cluster is supported by a Mapped Transcript.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_076872
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076872 NCBI Caenorhabditis elegans C.Elegans Homeobox family member (ceh-14) (ceh-14) mRNA, complete cds. A 
F46C8.5 ENSEMBL cdna:known chromosome:CEL140:X:7528560:7532676:-1 gene:F46C8.5 None
GENEFINDER00000044537 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:7528560:7532676:-1 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
chrX:7527806-7532689(-) 97.59 100.0
Public Domain and Genome References
Gene Title LIM homeobox protein
Gene Symbol ceh-14
Ensembl F46C8.5
Entrez Gene 181012 Entrez gene
SwissProt P20271 EMBL-EBI
WormBase CE28335 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.19744.1.S1_AT similar to LIM homeobox protein 4 cfa
U133_X3P:HS2.152082.1.S2_3P_AT LIM homeobox 4 hs
U133_X3P:HS2.152082.1.S1_3P_AT LIM homeobox 4 hs
HG-U133_PLUS_2:1553156_AT LIM homeobox 4 hs
HG-U133_PLUS_2:1553157_AT LIM homeobox 4 hs
HG-U133_PLUS_2:232781_AT LIM homeobox 4 hs
HG-U133B:232781_AT LIM homeobox 4 hs
HU35KSUBB:RC_F08849_S_AT LIM homeobox 4 hs
U133_X3P:HS.7175.0.A1_3P_AT LIM homeobox 4 hs
U133_X3P:HS.120127.0.S1_3P_AT LIM homeobox 4 hs
HG-U133_PLUS_2:228209_AT LIM homeobox 4 hs
HG-U133B:228209_AT LIM homeobox 4 hs
HG-U95B:46663_AT LIM homeobox 4 hs
HG-U95C:54709_AT LIM homeobox 4 hs
HG-U95C:57414_AT LIM homeobox 4 hs
HG-U95C:66884_AT LIM homeobox 4 hs
MOE430A:1421483_AT LIM homeobox protein 4 mm
MOUSE430A_2:1421483_AT LIM homeobox protein 4 mm
MOUSE430_2:1421483_AT LIM homeobox protein 4 mm
RAE230B:1380181_AT LIM homeobox protein 4 (predicted) rn
RAT230_2:1380181_AT LIM homeobox protein 4 (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
5634 nucleus inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
3700 transcription factor activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAF99943 C.elegans homeobox protein 14 [Caenorhabditis elegans] ref|NP_509273.1| C.Elegans Homeobox family member (ceh-14) [Caenorhabditis elegans] gb|AAF77181.1| LIM homeobox protein CEH-14 [Caenorhabditis elegans] sp|P20271|HM14_CAEEL Homeobox protein ceh-14 0.0
blast T34266 LIM homeobox protein ceh-14 - Caenorhabditis elegans 0.0
blast CAE70231 Hypothetical protein CBG16718 [Caenorhabditis briggsae] 1.0E-176
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 1.99999993653105E-21
Pfam IPR001356 EMBL-EBI Homeobox 1.4E-24
Pfam IPR001781 EMBL-EBI Zn-binding protein, LIM 8.6E-21
Pfam IPR001781 EMBL-EBI Zn-binding protein, LIM 2.0E-23
Sequence
Target Sequence 
>C. ELEGANS:175768_AT
aactttacaagtactctacctcacaaaatagacgaccccctactcaccaaacagccatga
gacatgcttgaaacattttctctcttgccaaaaaccttatctattccctgttttcgtata
tctctttatttctcttttcgtttcatcacagctgtttgcccatgcaccgcagttttcaac
atttcaccactttctgaataaataggtcccttgcccgttttgcttcttccaataccccct
cgctcgctcgtttcatacatctcatagtcaatattcgtgtgaggcccccactcctctcct
tctaaacacttgttacgtatccctcgacaccttgaccattcattcttcatcaatggtgga
tgtgtaacacttatttcgaaatgtatgattgatggtgttcttcatacttttctctcaccc
cacgccacccccccccccccccccttccctcccatcagtgtttaatatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACTTTACAAGTACTCTACCTCACA 683 137 1308 Antisense
TACCTCACAAAATAGACGACCCCCT 690 643 1324 Antisense
GAAACATTTTCTCTCTTGCCAAAAA 366 355 1377 Antisense
TGCCAAAAACCTTATCTATTCCCTG 663 585 1393 Antisense
TCTATTCCCTGTTTTCGTATATCTC 47 615 1407 Antisense
TATTTCTCTTTTCGTTTCATCACAG 202 663 1434 Antisense
AGTTTTCAACATTTCACCACTTTCT 268 63 1478 Antisense
TGAATAAATAGGTCCCTTGCCCGTT 418 573 1502 Antisense
TCGCTCGTTTCATACATCTCATAGT 432 599 1551 Antisense
CTAAACACTTGTTACGTATCCCTCG 609 225 1609 Antisense
TTCCCTCCCATCAGTGTTTAATATC 368 697 1752 Antisense
Sequence Source GenBank