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[173319_s_at] laminin repeats; EGF-like repeats

Description CEK009E9R_rc /REP_DB=TREMBL Accession /GB=D28085 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk9e9 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 07      6grp_high1_10_10 > 32      4grp_highest_8_8 > 58      4grp_high_8_8 > 33      6grp_highest_nonorm > 32      6grp_total > 31      4grp_total > 47      6grp_highest_sub > 04      6grp_high1_sub > 02_03      6grp_total_sub > Hat      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1987
1 2 3 4 range
A 1600.6
(3)
P 		947.5
(-0.5)
P 		488
(-3)
P 		573.9
(-2.5)
P 		1113
B 1697.2
(3)
P 		1239.8
(-0.2)
P 		849
(-3)
P 		1222.5
(-0.4)
P 		848
C 2474.7
(3)
P 		769.9
(-3)
P 		1054.9
(-2)
P 		821
(-2.8)
P 		1705
avr 1924.2
(3) 		985.7
(-2) 		797.3
(-3) 		872.5
(-2.6) 		1127

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 999
1 2 3 4 5 6 range
A 842.9
(-0.7)
P 		1457.6
(3)
P 		1361.5
(2.4)
P 		1053.9
(0.6)
P 		1138.3
(1.1)
P 		458.6
(-3)
P 		999
B 1114.6
(1.6)
P 		1238.1
(2.8)
P 		1169.6
(2.1)
P 		1253
(3)
P 		1073.2
(1.1)
P 		679.2
(-3)
P 		574
C 1224.7
(3)
P 		1010.9
(-0.1)
P 		1024.6
(0.1)
P 		1166.9
(2.2)
P 		1017.9
(0)
P 		806.7
(-3)
P 		418
avr 1060.7
(1.2) 		1235.5
(3) 		1185.2
(2.5) 		1157.9
(2.2) 		1076.5
(1.4) 		648.2
(-3) 		587
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 735
1 2 3 4 range
A 582.8
(3)
P 		205.7
(-1.5)
P 		127.6
(-2.5)
P 		84
(-3)
P 		499
B 541.2
(3)
P 		306.2
(-1.1)
P 		196.7
(-3)
P 		260.5
(-1.9)
P 		345
C 819.2
(3)
P 		221.4
(-2.3)
P 		367.7
(-1)
P 		138.4
(-3)
P 		681
avr 647.7
(3) 		244.4
(-2) 		230.7
(-2.1) 		161
(-3) 		487

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 407
1 2 3 4 5 6 range
A 155.4
(-2.4)
P 		518.4
(3)
P 		296.5
(-0.3)
P 		267.3
(-0.7)
P 		343.5
(0.4)
P 		111.7
(-3)
P 		407
B 387.8
(1.4)
P 		412.1
(2.2)
P 		284
(-2)
P 		331.9
(-0.4)
P 		436
(3)
P 		253.3
(-3)
P 		183
C 453.9
(3)
P 		308.5
(-1)
P 		260.8
(-2.3)
P 		234.7
(-3)
P 		329.4
(-0.4)
P 		270
(-2)
P 		219
avr 332.4
(0.6) 		413
(3) 		280.4
(-1) 		278
(-1) 		369.6
(1.7) 		211.7
(-3) 		201
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173319_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27614
Sequence Type Exemplar sequence
Representative Public ID CEK009E9R NCBI
Target Description CEK009E9R_rc /REP_DB=TREMBL Accession /GB=D28085 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk9e9 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript 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_062949(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062949 NCBI Caenorhabditis elegans T19D12.6 (T19D12.6) mRNA, complete cds. 11/11 None
T19D12.6 ENSEMBL cdna:known chromosome:CEL140:II:6637037:6643136:-1 gene:T19D12.6 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
chrII:6637089-6637825(-) 86.05 86.05
Public Domain and Genome References
Gene Title laminin repeats; EGF-like repeats
Ensembl T19D12.6
Entrez Gene 174097 Entrez gene
SwissProt Q22574 EMBL-EBI
WormBase CE37555 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1583584_S_AT similar to agrin cfa
CANINE_2:CFA.12589.1.A1_S_AT similar to agrin cfa
CANINE_2:CFAAFFX.28520.1.S1_AT similar to agrin cfa
DROSOPHILA_2:1625982_AT dm
DROSGENOME1:147275_AT dm
HU35KSUBB:RC_R08141_AT hypothetical protein FLJ39155 hs
U133_X3P:HS.20103.0.A1_3P_AT hypothetical protein FLJ39155 hs
HG-U133_PLUS_2:226911_AT hypothetical protein FLJ39155 hs
HG-U133B:226911_AT hypothetical protein FLJ39155 hs
HG-U95C:65533_AT hypothetical protein FLJ39155 hs
HG-U95D:84958_AT hypothetical protein FLJ39155 hs
HU35KSUBD:RC_AA398245_AT Hypothetical protein FLJ39155 hs
U133_X3P:HS2.382051.1.S1_3P_AT Hypothetical protein FLJ39155 hs
U133_X3P:HS2.156091.1.S1_3P_S_AT Hypothetical protein FLJ39155 hs
U133_X3P:HS2.156091.1.S1_3P_AT Hypothetical protein FLJ39155 hs
U133_X3P:HS.156091.0.A1_3P_S_AT Hypothetical protein FLJ39155 hs
HG-U133_PLUS_2:1556740_AT Hypothetical protein FLJ39155 hs
HG-U133_PLUS_2:1570163_AT Hypothetical protein FLJ39155 hs
HG-U133_PLUS_2:240225_AT Hypothetical protein FLJ39155 hs
HG-U133B:240225_AT Hypothetical protein FLJ39155 hs
HG-U95B:42117_AT Hypothetical protein FLJ39155 hs
HG-U95D:81212_AT Hypothetical protein FLJ39155 hs
MG-U74BV2:163138_AT expressed sequence AU040377 mm
MG-U74CV2:167448_I_AT expressed sequence AU040377 mm
MOE430B:1434647_AT expressed sequence AU040377 mm
MOUSE430_2:1434647_AT expressed sequence AU040377 mm
MU19KSUBB:TC30221_AT Expressed sequence AU040377, mRNA (cDNA clone MGC:106114 IMAGE:6467602) mm
RAE230B:1393433_AT similar to Agrin (predicted) rn
RAT230_2:1393433_AT similar to Agrin (predicted) rn
RAE230B:1398558_AT Similar to Agrin (predicted) rn
RAT230_2:1398558_AT Similar to Agrin (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7155 cell adhesion inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5198 structural molecule activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAC24426 Hypothetical protein T19D12.6 [Caenorhabditis elegans] ref|NP_495350.3| T19D12.6 [Caenorhabditis elegans] 0.0
blast CAE60675 Hypothetical protein CBG04328 [Caenorhabditis briggsae] 0.0
blast XP_787979 PREDICTED: similar to CG8403-PA [Strongylocentrotus purpuratus] 2.0E-27
Protein Domains
Database ID Description E-Value
Pfam IPR006209 EMBL-EBI EGF-like domain 7.5E-4
Pfam IPR001791 EMBL-EBI Laminin G 1.8E-8
Pfam IPR001791 EMBL-EBI Laminin G 7.4E-11
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_495350.3 1 7-29
T19D12.6 1 7-29
Sequence
Target Sequence 
>C. ELEGANS:173319_S_AT
actgtgcaatttaatcaattcactggtagtcgaatataaatnnnnntttgctgtttccgt
tgaaataagaatgtctatgccggttgttccgtatacgcataagttatttgttctgtattt
agcatgttgtcccttttcttacaatcacccatattacttttacatttc

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACTGTGCAATTTAATCAATTCACTG 309 97 208 Antisense
ATTTAATCAATTCACTGGTAGTCGA 488 13 216 Antisense
TTTGCTGTTTCCGTTGAAATAAGAA 126 669 254 Antisense
CTATGCCGGTTGTTCCGTATACGCA 540 223 282 Antisense
CCGGTTGTTCCGTATACGCATAAGT 598 261 287 Antisense
ACGCATAAGTTATTTGTTCTGTATT 53 93 302 Antisense
TGTTCTGTATTTAGCATGTTGTCCC 280 563 316 Antisense
TTAGCATGTTGTCCCTTTTCTTACA 660 681 326 Antisense
ATGTTGTCCCTTTTCTTACAATCAC 428 47 331 Antisense
CCTTTTCTTACAATCACCCATATTA 369 269 339 Antisense
ATCACCCATATTACTTTTACATTTC 273 29 351 Antisense
Sequence Source Affymetrix Proprietary Database