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[188428_at] cuticulin

Description R07E3.3 /REP_DB=WormBase Gene ID /WP=CE02297 /TR=Q21808 /GB=CAA89068.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=cuticulin
Cluster 6grp_highest_10_10 > 29      6grp_high1_10_10 > 82      4grp_high_8_8 > 29      6grp_highest_nonorm > 63      6grp_total > 91      4grp_total > 34      6grp_highest_sub > 04_05      6grp_high1_sub > 04      6grp_rule_based > S4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 75
1 2 3 4 range
A 48.9
(-3)
M 		109.2
(3)
P 		84.3
(0.5)
P 		99
(2)
P 		60
B 46.2
(-3)
P 		94.5
(3)
P 		65.6
(-0.6)
P 		75.7
(0.7)
P 		48
C 58.7
(-2.7)
P 		118.5
(2.7)
P 		55.1
(-3)
P 		121.6
(3)
P 		67
avr 51.3
(-3) 		107.4
(3) 		68.3
(-1.2) 		98.8
(2.1) 		56

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1484
1 2 3 4 5 6 range
A 115.5
(-3)
P 		105.7
(-3)
P 		281.3
(-2.2)
P 		1391.8
(3)
P 		1248.3
(2.3)
P 		278.2
(-2.2)
P 		1286
B 123.2
(-3)
P 		123.5
(-3)
P 		245.3
(-2.5)
P 		1589.4
(3)
P 		1153.7
(1.2)
P 		279.8
(-2.4)
P 		1466
C 108.7
(-3)
P 		113.8
(-3)
P 		269.4
(-2.3)
P 		1584
(3)
P 		1015.2
(0.7)
P 		353.2
(-2)
P 		1475
avr 115.8
(-3) 		114.3
(-3) 		265.3
(-2.4) 		1521.7
(3) 		1139.1
(1.4) 		303.7
(-2.2) 		1407
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 17.8
(-0.8)
M 		23.7
(3)
P 		22
(1.9)
P 		14.5
(-3)
P 		9
B 14.7
(-3)
P 		23.3
(3)
P 		15.2
(-2.7)
P 		16.1
(-2)
P 		9
C 19.4
(-2.9)
P 		34.1
(3)
P 		19.2
(-3)
P 		20.5
(-2.5)
P 		15
avr 17.3
(-2.8) 		27
(3) 		18.8
(-1.9) 		17
(-3) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 447
1 2 3 4 5 6 range
A 21.3
(-3)
P 		37.6
(-2.7)
P 		61.3
(-2.3)
P 		353
(2.6)
P 		376.7
(3)
P 		67.7
(-2.2)
P 		355
B 42.9
(-3)
P 		41.1
(-3)
P 		59.6
(-2.7)
P 		421
(2.3)
P 		468.7
(3)
P 		104.3
(-2.1)
P 		428
C 40.3
(-2.9)
P 		34.7
(-3)
P 		68.6
(-2.3)
P 		318.6
(2.8)
P 		328.5
(3)
P 		118.2
(-1.3)
P 		294
avr 34.8
(-3) 		37.8
(-2.9) 		63.2
(-2.5) 		364.2
(2.5) 		391.3
(3) 		96.7
(-2) 		357
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188428_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16817
Sequence Type Exemplar sequence
Representative Public ID R07E3.3 NCBI
Target Description R07E3.3 /REP_DB=WormBase Gene ID /WP=CE02297 /TR=Q21808 /GB=CAA89068.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=cuticulin
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_077333(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077333 NCBI Caenorhabditis elegans R07E3.3 (cuticulin) mRNA, complete cds. 11/11 None
SNAP00000043089 ENSEMBL cdna:SNAP chromosome:CEL140:X:10333942:10335270:-1 9/11 None
GENEFINDER00000043095 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:10333942:10335508:-1 11/11 None
R07E3.3 ENSEMBL cdna:known chromosome:CEL140:X:10333942:10335988:-1 gene:R07E3.3 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
chrX:10333941-10335510(-) 99.54 99.54
Public Domain and Genome References
Gene Title cuticulin
Ensembl R07E3.3
Entrez Gene 187677 Entrez gene
SwissProt Q21808 EMBL-EBI
WormBase CE02297 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA89068 Hypothetical protein R07E3.3 [Caenorhabditis elegans] ref|NP_509734.1| R07E3.3 [Caenorhabditis elegans] 1.0E-159
blast CAA89068 Hypothetical protein R07E3.3 [Caenorhabditis elegans] ref|NP_509734.1| R07E3.3 [Caenorhabditis elegans] 1.0E-158
blast CAE70564 Hypothetical protein CBG17211 [Caenorhabditis briggsae] 1.0E-140
blast CAA89068 Hypothetical protein R07E3.3 [Caenorhabditis elegans] ref|NP_509734.1| R07E3.3 [Caenorhabditis elegans] 1.0E-109
blast CAE70564 Hypothetical protein CBG17211 [Caenorhabditis briggsae] 8.0E-93
blast CAE59542 Hypothetical protein CBG02937 [Caenorhabditis briggsae] 4.0E-64
Protein Domains
Database ID Description E-Value
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 2.5E-18
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 3.2E-12
Pfam IPR001507 EMBL-EBI Endoglin/CD105 antigen 2.5E-18
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509734.1 1 249-271
R07E3.3 1 249-271
SNAP00000043089 1 175-197
GENEFINDER00000043095 1 247-269
Sequence
Target Sequence 
>C. ELEGANS:188428_AT
acacgttctgtatgcttgttcactcgtgtttcgttgatgatggaaacggtcaaagagtac
agcttttaaacgacaaaggatgcgctctcgacaaatacctcctcacaaatcttgagtatc
ccacagacctgatggcgggaagggaagcccacgtatacaaatatgccgatagagataaca
tgtattttgattgtcaaatttcgatcacagtcaaagagcctggtcttgactattgtgatg
tgccatcatgcccagatccaccgagaagaagaagatccaacacactaccagctcccgacg
ataatattactgcaatagctgctcatattgaatatgaagactctgagataataagcgatt
acatcatccccaacgatgacatcatctcgctgaattggttgcaaaggaattttgatatga
gaattagcgaactttgcatgacagctattgggacaacacttctcgttttcctcaacgcgt
tcttgtttataatctccttggtttctatcgtgcatgtgtgctgttttcgaacgtcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACACGTTCTGTATGCTTGTTCACTC 662 109 314 Antisense
AGGATGCGCTCTCGACAAATACCTC 185 57 390 Antisense
TGAGTATCCCACAGACCTGATGGCG 374 567 426 Antisense
TGTGATGTGCCATCATGCCCAGATC 406 555 547 Antisense
ACTACCAGCTCCCGACGATAATATT 630 101 597 Antisense
AATAAGCGATTACATCATCCCCAAC 667 169 663 Antisense
GACATCATCTCGCTGAATTGGTTGC 536 369 691 Antisense
TTGGGACAACACTTCTCGTTTTCCT 226 707 761 Antisense
ACGCGTTCTTGTTTATAATCTCCTT 634 89 788 Antisense
TAATCTCCTTGGTTTCTATCGTGCA 684 635 803 Antisense
GCATGTGTGCTGTTTTCGAACGTCC 242 311 825 Antisense
Sequence Source Affymetrix Proprietary Database