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[191677_at] EGF-like repeats

Description F11C7.4 /REP_DB=WormBase Gene ID /WP=CE07053 /GEN=crb-1 /TR=Q19350 /GB=AAC69012.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=EGF-like repeats
Cluster 6grp_total > 0      4grp_total > 33      6grp_total_sub > Hat      6grp_cgc > 64      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 198
1 2 3 4 range
A 68.8
(-3)
A 		123.1
(2)
A 		134.5
(3)
A 		110.1
(0.8)
A 		66
B 41.1
(-3)
A 		88.6
(3)
A 		60
(-0.6)
A 		78.4
(1.7)
A 		48
C 4.1
(-3)
A 		144.7
(1.3)
A 		112.1
(0.3)
A 		202.1
(3)
A 		198
avr 38
(-3) 		118.8
(2.3) 		102.2
(1.2) 		130.2
(3) 		92

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 143
1 2 3 4 5 6 range
A 109
(-3)
A 		123.5
(-1.4)
A 		146.4
(1.2)
A 		118.6
(-1.9)
A 		162.7
(3)
A 		153.6
(2)
A 		54
B 117
(0)
A 		187.5
(3)
M 		44.6
(-3)
A 		139.8
(1)
M 		134.4
(0.8)
M 		146.3
(1.3)
M 		143
C 58.1
(-3)
A 		178.9
(3)
A 		83.5
(-1.7)
A 		150.5
(1.6)
A 		87
(-1.6)
A 		118.5
(-0)
P 		121
avr 94.7
(-2.7) 		163.3
(3) 		91.5
(-3) 		136.3
(0.7) 		128
(0.1) 		139.5
(1) 		72
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 40
1 2 3 4 range
A 25.1
(-0.2)
A 		26.7
(0.3)
A 		35.2
(3)
A 		16.1
(-3)
A 		19
B 13.1
(-3)
A 		21.9
(3)
A 		13.9
(-2.5)
A 		16.7
(-0.5)
A 		9
C 1.4
(-3)
A 		41.6
(3)
A 		39.1
(2.6)
A 		34.1
(1.9)
A 		40
avr 13.2
(-3) 		30.1
(3) 		29.4
(2.8) 		22.3
(0.2) 		17

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 52
1 2 3 4 5 6 range
A 20.1
(-3)
A 		43.9
(1.9)
A 		31.9
(-0.6)
A 		30.1
(-0.9)
A 		49.1
(3)
A 		37.4
(0.6)
A 		29
B 40.7
(0.5)
A 		62.4
(3)
M 		10.8
(-3)
A 		37
(0)
M 		54.6
(2.1)
M 		54.5
(2.1)
M 		52
C 21.5
(-3)
A 		54.6
(3)
A 		21.3
(-3)
A 		30.3
(-1.4)
A 		28.2
(-1.8)
A 		39.7
(0.3)
P 		33
avr 27.4
(-1.9) 		53.6
(3) 		21.3
(-3) 		32.5
(-0.9) 		44
(1.2) 		43.9
(1.2) 		32
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191677_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17424
Sequence Type Exemplar sequence
Representative Public ID F11C7.4 NCBI
Target Description F11C7.4 /REP_DB=WormBase Gene ID /WP=CE07053 /GEN=crb-1 /TR=Q19350 /GB=AAC69012.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=EGF-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_078421(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078421 NCBI Caenorhabditis elegans Drosophila CRumBs homolog family member (crb-1) (crb-1) mRNA, complete cds. 11/11 None
GENEFINDER00000033135 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:17402716:17413761:-1 11/11 None
F11C7.4 ENSEMBL cdna:known chromosome:CEL140:X:17402465:17413761:-1 gene:F11C7.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000033128 5/11 Cross Hyb Matching Probes None
SNAP00000033129 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:17402714-17413760(-) 100.0 100.0
Public Domain and Genome References
Gene Title EGF-like repeats
Gene Symbol crb-1
Ensembl F11C7.4
Entrez Gene 181771 Entrez gene
SwissProt Q19350 EMBL-EBI
WormBase CE07053 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1628146_AT crumbs dm
DROSGENOME1:153779_AT crumbs dm
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6418 tRNA aminoacylation for protein translation inferred from electronic annotation QuickGO AmiGO
7155 cell adhesion inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4812 tRNA ligase activity inferred from electronic annotation QuickGO AmiGO
5198 structural molecule activity inferred from electronic annotation QuickGO AmiGO
5509 calcium ion binding inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAC69012 Drosophila crumbs homolog protein 1 [Caenorhabditis elegans] ref|NP_510822.1| Drosophila CRumBs homolog family member (crb-1) [Caenorhabditis elegans] 0.0
blast CAE69671 Hypothetical protein CBG15921 [Caenorhabditis briggsae] 0.0
blast XP_786539 PREDICTED: similar to CG6383-PA [Strongylocentrotus purpuratus] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001791 EMBL-EBI Laminin G 1.0E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 3.2E-9
Pfam IPR006209 EMBL-EBI EGF-like domain 7.6E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 1.1E-7
Pfam IPR006209 EMBL-EBI EGF-like domain 7.2E-10
Pfam IPR006209 EMBL-EBI EGF-like domain 3.2E-9
Pfam IPR006209 EMBL-EBI EGF-like domain 5.9E-9
Pfam IPR006209 EMBL-EBI EGF-like domain 4.9E-8
Pfam IPR006209 EMBL-EBI EGF-like domain 8.4E-7
Pfam IPR006209 EMBL-EBI EGF-like domain 2.6E-9
Pfam IPR006209 EMBL-EBI EGF-like domain 4.8E-5
Pfam IPR006209 EMBL-EBI EGF-like domain 6.4E-7
Pfam IPR006209 EMBL-EBI EGF-like domain 4.5E-7
Pfam IPR006209 EMBL-EBI EGF-like domain 5.6E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 6.2E-5
Pfam IPR006209 EMBL-EBI EGF-like domain 1.3E-6
Pfam IPR006209 EMBL-EBI EGF-like domain 1.4E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 2.1E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 9.3E-6
Pfam IPR006209 EMBL-EBI EGF-like domain 2.3E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 1.1E-8
Pfam IPR006209 EMBL-EBI EGF-like domain 1.6E-6
Pfam IPR006209 EMBL-EBI EGF-like domain 5.5E-8
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510822.1 1 1663-1685
F11C7.4 1 1663-1685
GENEFINDER00000033135 1 1663-1685
Sequence
Target Sequence 
>C. ELEGANS:191677_AT
gatgaatgtgcgctcgagttctgtaagaatggtgcaaaatgtcgagataagatcaacgat
tatgagtgtgtttgtgatggaactggatttgaaggaagaaactgcacaactgacatcaac
gaatgtgcaaatccaaacaactgcatcaacggagaatgtacgaatactcttggaaactat
aagtgtgcttgtcgcaatggcttcattggtcctcgctgctcggttcggaacccttgcacc
gcgcaaatcgcatcaaacaacatctcaagtgtcacttgtgtacatggaaaatgcgtgaac
cccgttgtccaaattgagaaaaaccgcgaagtggcgaaatacgagtgcgcctgcgatcga
ggttatacggggcctacgtgttcgcaaagaataaaagagtcagccatgtcaaacatcagc
tatttgttcggaccaattattgcggttgtcatcgtgtttgccatattgggatgtctgctg
ctgttctttgtgatacggggcaataacgccatgcatggtcattatagcccaagttcgcac
g

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGAATGTGCGCTCGAGTTCTGTA 213 413 4573 Antisense
AGTGTGCTTGTCGCAATGGCTTCAT 435 59 4754 Antisense
CTTGCACCGCGCAAATCGCATCAAA 278 219 4805 Antisense
TGGAAAATGCGTGAACCCCGTTGTC 663 545 4857 Antisense
ATACGAGTGCGCCTGCGATCGAGGT 94 23 4911 Antisense
TTATACGGGGCCTACGTGTTCGCAA 153 623 4935 Antisense
TTGTCATCGTGTTTGCCATATTGGG 95 709 5018 Antisense
CATATTGGGATGTCTGCTGCTGTTC 681 213 5034 Antisense
GCTGCTGTTCTTTGTGATACGGGGC 281 295 5049 Antisense
GGGGCAATAACGCCATGCATGGTCA 580 497 5069 Antisense
GGTCATTATAGCCCAAGTTCGCACG 655 503 5089 Antisense
Sequence Source Affymetrix Proprietary Database