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[193977_s_at]

Description F43C9.4 /REP_DB=WormBase Gene ID /WP=CE28324 /GEN=mig-13 /TR=Q20360 /GB=AAA81470.2 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=LDL-receptor class repeats; C1R-C1S-like repeats
Cluster 6grp_highest_10_10 > 83      6grp_high1_10_10 > 48      4grp_highest_8_8 > 31      4grp_high_8_8 > 13      6grp_highest_nonorm > 90      6grp_total > 48      4grp_total > 11      6grp_highest_sub > Cu      6grp_cgc > 07      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 125
1 2 3 4 range
A 123.1
(-2.4)
P 		139.8
(-1.6)
P 		110.4
(-3)
P 		233.4
(3)
P 		123
B 153.8
(-1.1)
P 		144.4
(-1.9)
P 		131.6
(-3)
P 		203.5
(3)
P 		72
C 129.4
(-1.6)
P 		122.7
(-2.1)
P 		108
(-3)
P 		202.5
(3)
P 		95
avr 135.4
(-1.8) 		135.6
(-1.8) 		116.7
(-3) 		213.1
(3) 		96

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 100
1 2 3 4 5 6 range
A 222.8
(3)
P 		178.1
(0.3)
P 		123
(-3)
P 		161.1
(-0.7)
P 		153.6
(-1.2)
P 		185.5
(0.8)
P 		100
B 170.1
(3)
P 		137.3
(-1.3)
P 		159.5
(1.6)
P 		123.8
(-3)
P 		144
(-0.4)
P 		155.2
(1.1)
P 		46
C 160.9
(-0.3)
P 		133.1
(-3)
P 		195.7
(3)
P 		143.9
(-2)
P 		180.5
(1.5)
P 		194.8
(2.9)
P 		63
avr 184.6
(3) 		149.5
(-2.1) 		159.4
(-0.6) 		142.9
(-3) 		159.4
(-0.6) 		178.5
(2.1) 		42
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 44.8
(3)
P 		30.3
(-2.5)
P 		28.9
(-3)
P 		34.2
(-1)
P 		16
B 49.1
(3)
P 		35.7
(-1.3)
P 		30.5
(-3)
P 		43.4
(1.2)
P 		19
C 42.8
(3)
P 		35.3
(-2.2)
P 		37.7
(-0.5)
P 		34.1
(-3)
P 		9
avr 45.6
(3) 		33.8
(-2.4) 		32.4
(-3) 		37.2
(-0.8) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 38
1 2 3 4 5 6 range
A 41.1
(-0.6)
P 		63.3
(3)
P 		26.8
(-3)
P 		40.9
(-0.7)
P 		46.4
(0.2)
P 		45.2
(0)
P 		37
B 59.2
(3)
P 		45.7
(-0.1)
P 		38.7
(-1.7)
P 		32.8
(-3)
P 		58.5
(2.8)
P 		57.9
(2.7)
P 		26
C 59.6
(2.1)
P 		40.6
(-1.1)
P 		49.8
(0.5)
P 		28.9
(-3)
P 		58.4
(1.9)
P 		65.2
(3)
P 		36
avr 53.3
(2.2) 		49.9
(1.3) 		38.4
(-1.8) 		34.2
(-3) 		54.4
(2.5) 		56.1
(3) 		22
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193977_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17269
Sequence Type Exemplar sequence
Representative Public ID F43C9.4 NCBI
Target Description F43C9.4 /REP_DB=WormBase Gene ID /WP=CE28324 /GEN=mig-13 /TR=Q20360 /GB=AAA81470.2 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=LDL-receptor class repeats; C1R-C1S-like repeats
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_001029489(11), NM_001029490(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029489 NCBI Caenorhabditis elegans abnormal cell MIGration family member (mig-13) (mig-13) mRNA, complete cds. 11/11 None
NM_001029490 NCBI Caenorhabditis elegans abnormal cell MIGration family member (mig-13) (mig-13) mRNA, complete cds. 11/11 None
SNAP00000037150 ENSEMBL cdna:SNAP chromosome:CEL140:X:4796421:4799611:-1 9/11 None
GENEFINDER00000037153 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:4796421:4799611:-1 9/11 None
F43C9.4a ENSEMBL cdna:known chromosome:CEL140:X:4796116:4800096:-1 gene:F43C9.4 11/11 A 
F43C9.4b ENSEMBL cdna:known chromosome:CEL140:X:4796421:4799590:-1 gene:F43C9.4 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
chrX:4796421-4799612(-) 100.0 100.0
Public Domain and Genome References
Ensembl F43C9.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA81470 Abnormal cell migration protein 13, isoform a [Caenorhabditis elegans] ref|NP_001024660.1| abnormal cell MIGration family member (mig-13) [Caenorhabditis elegans] gb|AAD43178.1| guidance protein MIG-13 [Caenorhabditis elegans] 0.0
blast AAP82652 Abnormal cell migration protein 13, isoform b [Caenorhabditis elegans] ref|NP_001024661.1| abnormal cell MIGration family member (mig-13) [Caenorhabditis elegans] 0.0
blast CAE68651 Hypothetical protein CBG14545 [Caenorhabditis briggsae] 1.0E-171
Protein Domains
Database ID Description E-Value
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 2.3E-8
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 2.3E-8
Pfam IPR002172 EMBL-EBI Low density lipoprotein-receptor, class A 2.3E-8
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001024660.1 1 239-261
NP_001024661.1 1 233-255
F43C9.4a 1 239-261
F43C9.4b 1 233-255
Sequence
Target Sequence 
>C. ELEGANS:193977_S_AT
tcgatccggaaagctatgcacctgctcgcatcgatgacatcacatcgccaggtccgataa
tcggacaattttgtggacactttgaaaatcgcattttgaatacaagctcacataacgcac
tgacactttggtggcactcaaatcccaatggctcaaattcgaaaggattcaagttgcact
ggggtagctttcgggtttctaaaaccggtaactgcgtaaccggggaattctcatgcggca
acggagaatgcattcccatcgaatccgcgtgtgatcggttcgccgactgctcaaacggcg
aagacctaatccactctcgtcagatggccgccaattgtcagagtgcttcatctcacacta
caactaccactgccacggactataagcctgatccaccgcagttttatccaccatctcctc
caaaaatgccgccgccgtcagcagctagtagttacactccgaggttgcaccatcatttcg
agggtccactggtgccaagcgagacgag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCGATCCGGAAAGCTATGCACCTGC 94 603 347 Antisense
CCTGCTCGCATCGATGACATCACAT 572 265 367 Antisense
CGCACTGACACTTTGGTGGCACTCA 178 255 462 Antisense
TGGCACTCAAATCCCAATGGCTCAA 42 547 478 Antisense
GGAGAATGCATTCCCATCGAATCCG 284 519 589 Antisense
TCGAATCCGCGTGTGATCGGTTCGC 266 601 605 Antisense
AAACGGCGAAGACCTAATCCACTCT 66 127 639 Antisense
GTGCTTCATCTCACACTACAACTAC 462 479 689 Antisense
CTACCACTGCCACGGACTATAAGCC 273 225 710 Antisense
GTAGTTACACTCCGAGGTTGCACCA 208 457 794 Antisense
GTCCACTGGTGCCAAGCGAGACGAG 520 477 830 Antisense
Sequence Source Affymetrix Proprietary Database