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[172844_x_at] collagen-like repeats

Description F41E7.5 /REP_DB=WormBase Gene ID /WP=CE03305 /TR=Q20277 /GB=CAA92128.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=collagen-like repeats
Cluster 6grp_highest_10_10 > 0      6grp_high1_10_10 > 0      4grp_highest_8_8 > 09      4grp_high_8_8 > 53      6grp_highest_nonorm > 14      6grp_total > 03      4grp_total > 58      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5210
1 2 3 4 range
A 2628.1
(-0.7)
P 		5114.6
(2.3)
P 		5676.7
(3)
P 		766.1
(-3)
P 		4911
B 2663.3
(-0.9)
P 		5924.3
(2.9)
P 		5976.1
(3)
P 		918.6
(-3)
P 		5058
C 2550
(-1)
P 		5737.3
(3)
P 		5692.6
(2.9)
P 		896.3
(-3)
P 		4841
avr 2613.8
(-0.9) 		5592.1
(2.8) 		5781.8
(3) 		860.3
(-3) 		4922

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4441
1 2 3 4 5 6 range
A 4943.8
(3)
P 		3013.1
(0)
P 		4088.9
(1.7)
P 		4699.7
(2.6)
P 		3019.5
(0)
P 		1035.7
(-3)
P 		3908
B 5476.4
(3)
P 		3506.2
(0.1)
P 		3525.4
(0.2)
P 		4421.8
(1.5)
P 		3732.5
(0.5)
P 		1368.8
(-3)
P 		4108
C 4799.3
(3)
P 		3589.6
(1)
P 		3122.1
(0.2)
P 		4507.9
(2.5)
P 		3086.1
(0.1)
P 		1226
(-3)
P 		3573
avr 5073.2
(3) 		3369.6
(0.4) 		3578.8
(0.7) 		4543.1
(2.2) 		3279.4
(0.2) 		1210.2
(-3) 		3863
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1872
1 2 3 4 range
A 956.9
(0.7)
P 		1110.2
(1.4)
P 		1484
(3)
P 		112.1
(-3)
P 		1372
B 849.3
(0.1)
P 		1463.2
(3)
P 		1384.8
(2.6)
P 		195.7
(-3)
P 		1268
C 844.1
(-0.7)
P 		1649.5
(1.9)
P 		1984.1
(3)
P 		151.1
(-3)
P 		1833
avr 883.4
(-0) 		1407.6
(2.1) 		1617.6
(3) 		153
(-3) 		1465

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1653
1 2 3 4 5 6 range
A 911.3
(1.2)
P 		1071.6
(2.2)
P 		890.5
(1.1)
P 		1191.9
(3)
P 		911.2
(1.2)
P 		252.2
(-3)
P 		940
B 1905.5
(3)
P 		1167.1
(-0.2)
P 		856.1
(-1.5)
P 		1171.2
(-0.2)
P 		1516.5
(1.3)
P 		510.4
(-3)
P 		1395
C 1778.9
(3)
P 		1095.3
(0)
P 		794.6
(-1.3)
P 		906.5
(-0.8)
P 		998.6
(-0.4)
P 		410.4
(-3)
P 		1369
avr 1531.9
(3) 		1111.3
(0.8) 		847.1
(-0.6) 		1089.9
(0.7) 		1142.1
(1) 		391
(-3) 		1141
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172844_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16988
Sequence Type Exemplar sequence
Representative Public ID F41E7.5 NCBI
Target Description F41E7.5 /REP_DB=WormBase Gene ID /WP=CE03305 /TR=Q20277 /GB=CAA92128.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=collagen-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_077326(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077326 NCBI Caenorhabditis elegans F41E7.5 (F41E7.5) mRNA, complete cds. 11/11 None
SNAP00000016491 ENSEMBL cdna:SNAP chromosome:CEL140:X:10304457:10304795:1 11/11 None
GENEFINDER00000016499 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:10304457:10304795:1 11/11 None
F41E7.5 ENSEMBL cdna:known chromosome:CEL140:X:10304457:10304795:1 gene:F41E7.5 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:10304456-10304795(+) 100.0 100.0
Public Domain and Genome References
Gene Title collagen-like repeats
Ensembl F41E7.5
Entrez Gene 181238 Entrez gene
SwissProt Q20277 EMBL-EBI
WormBase CE03305 Wormbase
Sequence
Target Sequence 
>C. ELEGANS:172844_X_AT
gaactcctactctattattcttctcctcggccttctcgctgccgtcatggccgctccaca
aagagtcattgaaaagaccaccattatccgtggaggaggtggaggtttcggaggtgggcc
aggacagttcggtcgcggtgggtttggcggaggaccaggatctaactacggaccaggacg
tggaggattcggaggaaacggaggattcggaggaaatggaggatttggaggtggaccatc
atatggaggaagaggtggattcggtggaggaccaggattcggaggacgtggtggaccaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAACTCCTACTCTATTATTCTTCTC 590 347 15 Antisense
TCATGGCCGCTCCACAAAGAGTCAT 665 621 59 Antisense
AAAGACCACCATTATCCGTGGAGGA 517 121 87 Antisense
TGGAGGTTTCGGAGGTGGGCCAGGA 110 471 114 Antisense
TCGGAGGTGGGCCAGGACAGTTCGG 349 605 122 Antisense
GTGGGTTTGGCGGAGGACCAGGATC 112 471 152 Antisense
GACCAGGATCTAACTACGGACCAGG 444 381 167 Antisense
ACGGACCAGGACGTGGAGGATTCGG 326 93 182 Antisense
GGAGGATTTGGAGGTGGACCATCAT 685 515 232 Antisense
GGTGGAGGACCAGGATTCGGAGGAC 467 497 277 Antisense
GATTCGGAGGACGTGGTGGACCAAC 40 431 290 Antisense
Sequence Source Affymetrix Proprietary Database