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[173641_at]

Description CEK026F1R_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=K07D8.1 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D33128 /WB_GENE_ID=K07D8.1 /WP=CE25938 /CHR=3 /FEA=Genomic Cluster /GEN=mup-4 /DEF=C.elegans cDNA clone yk26f1 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 52      6grp_high1_10_10 > 29      4grp_high_8_8 > 61      6grp_highest_nonorm > 30      6grp_total > 26      4grp_total > 59      6grp_highest_sub > 01_02      6grp_cgc > 03      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1021
1 2 3 4 range
A 634.8
(0.9)
P 		761.7
(1.7)
P 		952.3
(3)
P 		64.8
(-3)
A 		888
B 615.6
(0.6)
P 		794.2
(1.8)
P 		975
(3)
P 		61
(-3)
M 		914
C 618.2
(0.2)
P 		843
(1.6)
P 		1082.1
(3)
P 		79.1
(-3)
P 		1003
avr 622.9
(0.6) 		799.6
(1.7) 		1003.1
(3) 		68.3
(-3) 		935

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 639
1 2 3 4 5 6 range
A 653
(-1.3)
P 		917
(3)
P 		573.5
(-2.6)
P 		551
(-3)
P 		893.6
(2.6)
P 		598.2
(-2.2)
P 		366
B 1042.9
(1.6)
P 		1189.9
(3)
P 		836.3
(-0.4)
P 		557.3
(-3)
P 		651.5
(-2.1)
P 		737.2
(-1.3)
P 		633
C 1162.4
(3)
P 		924
(0.5)
P 		602.9
(-2.8)
P 		582.7
(-3)
P 		953.1
(0.8)
P 		798
(-0.8)
P 		580
avr 952.8
(2.2) 		1010.3
(3) 		670.9
(-1.6) 		563.7
(-3) 		832.7
(0.6) 		711.1
(-1) 		447
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 368
1 2 3 4 range
A 231.1
(2.6)
P 		165.3
(0.9)
P 		248.9
(3)
P 		9.5
(-3)
A 		239
B 196.3
(2.2)
P 		196.2
(2.2)
P 		225.9
(3)
P 		13
(-3)
M 		213
C 204.6
(0.2)
P 		242.4
(0.8)
P 		377.1
(3)
P 		13.3
(-3)
P 		364
avr 210.7
(1.4) 		201.3
(1.2) 		284
(3) 		11.9
(-3) 		272

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 314
1 2 3 4 5 6 range
A 120.4
(-3)
P 		326.1
(3)
P 		124.9
(-2.9)
P 		139.8
(-2.4)
P 		269.6
(1.4)
P 		145.7
(-2.3)
P 		206
B 362.9
(2.2)
P 		396.1
(3)
P 		203.1
(-1.7)
P 		147.6
(-3)
P 		264.7
(-0.2)
P 		274.9
(0.1)
P 		249
C 430.8
(3)
P 		281.9
(0.2)
P 		153.4
(-2.3)
P 		117.2
(-3)
P 		308.4
(0.7)
P 		267.1
(-0.1)
P 		314
avr 304.7
(2.1) 		334.7
(3) 		160.5
(-2.2) 		134.9
(-3) 		280.9
(1.4) 		229.2
(-0.2) 		200
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173641_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24136
Sequence Type Exemplar sequence
Representative Public ID CEK026F1R NCBI
Target Description CEK026F1R_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=K07D8.1 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D33128 /WB_GENE_ID=K07D8.1 /WP=CE25938 /CHR=3 /FEA=Genomic Cluster /GEN=mup-4 /DEF=C.elegans cDNA clone yk26f1 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_066244(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066244 NCBI Caenorhabditis elegans MUscle Positioning family member (mup-4) (mup-4) mRNA, complete cds. 10/11 A 
K07D8.1.3 ENSEMBL cdna:known chromosome:CEL140:III:7479525:7488982:-1 gene:K07D8.1 10/11 None
K07D8.1.1 ENSEMBL cdna:known chromosome:CEL140:III:7479601:7488982:-1 gene:K07D8.1 11/11 A 
K07D8.1.2 ENSEMBL cdna:known chromosome:CEL140:III:7479604:7488995:-1 gene:K07D8.1 11/11 A 
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
chrIII:7479621-7488981(-) 99.61 100.0
Public Domain and Genome References
Gene Title
Gene Symbol mup-4
Ensembl K07D8.1
Entrez Gene 176060 Entrez gene
SwissProt Q21281 EMBL-EBI
WormBase CE29511 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
5509 calcium ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA28092 Muscle positioning protein 4 [Caenorhabditis elegans] ref|NP_498645.1| MUscle Positioning family member (mup-4) [Caenorhabditis elegans] 0.0
blast AAK69172 transmembrane matrix receptor MUP-4 [Caenorhabditis elegans] 0.0
blast CAE64462 Hypothetical protein CBG09178 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002035 EMBL-EBI von Willebrand factor, type A 3.4E-63
Pfam IPR006209 EMBL-EBI EGF-like domain 4.8E-6
Pfam IPR006209 EMBL-EBI EGF-like domain 1.1E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 1.5E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 2.3E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 3.3E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 1.9E-6
Pfam IPR006209 EMBL-EBI EGF-like domain 1.9E-7
Pfam IPR006209 EMBL-EBI EGF-like domain 1.4E-6
Pfam IPR006209 EMBL-EBI EGF-like domain 3.6E-5
Pfam IPR006209 EMBL-EBI EGF-like domain 1.6E-7
Pfam IPR006209 EMBL-EBI EGF-like domain 3.3E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 2.3E-7
Pfam IPR006209 EMBL-EBI EGF-like domain 6.7E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 2.9E-6
Pfam IPR000082 EMBL-EBI SEA domain 1.7E-4
Pfam IPR000082 EMBL-EBI SEA domain 2.0E-10
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_498645.1 1 1862-1884
K07D8.1.3 1 1862-1884
K07D8.1.1 1 1862-1884
K07D8.1.2 1 1862-1884
Sequence
Target Sequence 
>C. ELEGANS:173641_AT
aactatttctagattacttaccattattttttagttgtgtgctcaaaaactttttttgct
ccaattttgtacatattcaaaacaacaccccctcccaacccattgaattacgaagtatca
aatacaccgctagaattctttgtttcgtgtttttattttaaatttttatatttttctaga
aagaaatgcatttccaaaccaatcaataatatccagatttgcaataaatccccgtgctca
tttcctctgttcttttctccgattgtttttcatttcaaacaattcctgccatccaaaaaa
atatttctttctctagaaactttcat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACTATTTCTAGATTACTTACCATT 703 109 6338 Antisense
ACCATTATTTTTTAGTTGTGTGCTC 567 85 6357 Antisense
CTTTTTTTGCTCCAATTTTGTACAT 300 223 6387 Antisense
GTATCAAATACACCGCTAGAATTCT 426 453 6452 Antisense
GCTAGAATTCTTTGTTTCGTGTTTT 158 303 6466 Antisense
GAAATGCATTTCCAAACCAATCAAT 560 361 6520 Antisense
ATTTGCAATAAATCCCCGTGCTCAT 664 15 6554 Antisense
TTTTCTCCGATTGTTTTTCATTTCA 482 677 6590 Antisense
TCATTTCAAACAATTCCTGCCATCC 318 619 6607 Antisense
CAAACAATTCCTGCCATCCAAAAAA 71 189 6613 Antisense
TATTTCTTTCTCTAGAAACTTTCAT 308 661 6639 Antisense
Sequence Source Affymetrix Proprietary Database