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[173385_at] membrane protein

Description g1620671-REP_DB=GenBank Identifier /5_PRIME_EXT_ID=g1620671 /5_PRIME_EXT_DB=GenBank Identifier /CHR=1 /FEA=Genomic Cluster /GEN=unc-40
Cluster 6grp_highest_10_10 > 52      6grp_high1_10_10 > 25      4grp_highest_8_8 > 48      4grp_high_8_8 > 42      6grp_highest_nonorm > 60      6grp_total > 27      4grp_total > 53      6grp_highest_sub > 01_02      6grp_cgc > 04      6grp_high1_sub > 01_02      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 316
1 2 3 4 range
A 456.8
(3)
P 		347.1
(0.8)
P 		215.1
(-1.8)
P 		153.1
(-3)
P 		304
B 456
(3)
P 		328.6
(0.2)
P 		314.5
(-0.1)
P 		181.8
(-3)
P 		274
C 469.1
(3)
P 		360.1
(0.2)
P 		288.9
(-1.7)
P 		238.7
(-3)
P 		230
avr 460.6
(3) 		345.3
(0.4) 		272.8
(-1.2) 		191.2
(-3) 		269

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 377
1 2 3 4 5 6 range
A 469.2
(3)
P 		433.3
(2.2)
P 		260.4
(-1.9)
P 		211.3
(-3)
P 		353.6
(0.3)
P 		280
(-1.4)
P 		258
B 525.3
(2.3)
P 		571.1
(3)
P 		193.9
(-3)
P 		373.2
(-0.1)
P 		274.4
(-1.7)
P 		340.7
(-0.7)
P 		377
C 481
(3)
P 		443.6
(2.1)
P 		279.9
(-2.1)
P 		242.1
(-3)
P 		344.2
(-0.4)
P 		308.3
(-1.3)
P 		239
avr 491.8
(3) 		482.7
(2.8) 		244.7
(-3) 		275.5
(-2.3) 		324.1
(-1.1) 		309.7
(-1.4) 		247
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 144
1 2 3 4 range
A 166.3
(3)
P 		75.3
(-0.8)
P 		56.2
(-1.6)
P 		22.4
(-3)
P 		144
B 145.4
(3)
P 		81.2
(-0.6)
P 		72.9
(-1.1)
P 		38.7
(-3)
P 		107
C 155.3
(3)
P 		103.5
(0.3)
P 		100.7
(0.2)
P 		40.3
(-3)
P 		115
avr 155.7
(3) 		86.7
(-0.4) 		76.6
(-0.9) 		33.8
(-3) 		122

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 143
1 2 3 4 5 6 range
A 86.5
(-1)
P 		154.1
(3)
P 		56.7
(-2.8)
P 		53.6
(-3)
P 		106.7
(0.2)
P 		68.2
(-2.1)
P 		101
B 182.8
(2.7)
P 		190.1
(3)
P 		47.1
(-3)
P 		98.9
(-0.8)
P 		111.5
(-0.3)
P 		127.1
(0.4)
P 		143
C 178.3
(3)
P 		135.4
(1)
P 		71.3
(-2)
P 		48.7
(-3)
P 		111.4
(-0.1)
P 		103.2
(-0.5)
P 		130
avr 149.2
(2.4) 		159.9
(3) 		58.4
(-3) 		67.1
(-2.5) 		109.9
(0) 		99.5
(-0.6) 		102
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173385_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22655
Sequence Type Exemplar sequence
Representative Public ID 1620671 NCBI
Target Description g1620671-REP_DB=GenBank Identifier /5_PRIME_EXT_ID=g1620671 /5_PRIME_EXT_DB=GenBank Identifier /CHR=1 /FEA=Genomic Cluster /GEN=unc-40
Cluster Evidence This cluster is supported by a Genomic 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_059263(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059263 NCBI Caenorhabditis elegans UNCoordinated family member (unc-40) (unc-40) mRNA, complete cds. 11/11 A 
T19B4.7 ENSEMBL cdna:known chromosome:CEL140:I:5679847:5691490:-1 gene:T19B4.7 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
chrI:5679847-5691449(-) 100.0 100.0
Public Domain and Genome References
Gene Title membrane protein
Gene Symbol unc-40
Ensembl T19B4.7
Entrez Gene 172233 Entrez gene
SwissProt Q94155 EMBL-EBI
WormBase CE25115 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.1208.1.S1_S_AT similar to Netrin receptor DCC precursor (Tumor suppressor protein DCC) (Colorectal cancer suppressor) cfa
HG-U133_PLUS_2:206939_AT deleted in colorectal carcinoma hs
HG-U133A:206939_AT deleted in colorectal carcinoma hs
HG-FOCUS:206939_AT deleted in colorectal carcinoma hs
HG-U133A_2:206939_AT deleted in colorectal carcinoma hs
HUGENEFL:X76132_AT deleted in colorectal carcinoma hs
U133_X3P:G4885174_3P_AT deleted in colorectal carcinoma hs
HG-U95AV2:32890_AT deleted in colorectal carcinoma hs
HG-U95E:80344_AT deleted in colorectal carcinoma hs
HG-U95E:84675_S_AT deleted in colorectal carcinoma hs
HG-U95D:85111_AT deleted in colorectal carcinoma hs
HG-U95AV2:1349_AT Deleted in colorectal carcinoma hs
HC-G110:1349_AT Deleted in colorectal carcinoma hs
HUGENEFL:S81294_AT Deleted in colorectal carcinoma hs
MOE430A:1422162_AT deleted in colorectal carcinoma mm
MOUSE430A_2:1422162_AT deleted in colorectal carcinoma mm
MOUSE430_2:1422162_AT deleted in colorectal carcinoma mm
MU11KSUBB:MSA.3100.0_AT deleted in colorectal carcinoma mm
MG-U74AV2:102566_AT deleted in colorectal carcinoma mm
MG-U74CV2:136568_AT deleted in colorectal carcinoma mm
MOE430B:1440487_AT Deleted in colorectal carcinoma (Dcc), mRNA mm
MOUSE430_2:1440487_AT Deleted in colorectal carcinoma (Dcc), mRNA mm
RG-U34A:U68725_AT deleted in colorectal carcinoma rn
RAE230A:1369339_AT deleted in colorectal carcinoma rn
RAT230_2:1369339_AT deleted in colorectal carcinoma rn
RAE230B:1379855_AT Deleted in colorectal carcinoma rn
RAT230_2:1379855_AT Deleted in colorectal carcinoma rn
RAE230B:1380096_AT Deleted in colorectal carcinoma rn
RAT230_2:1380096_AT Deleted in colorectal carcinoma rn
RAE230A:1381907_AT Deleted in colorectal carcinoma rn
RAT230_2:1381907_AT Deleted in colorectal carcinoma rn
Protein Similarities
Method ID Description E-Value
blast AAB37634 Uncoordinated protein 40 [Caenorhabditis elegans] ref|NP_491664.1| UNCoordinated family member (unc-40) [Caenorhabditis elegans] gb|AAB17088.1| unc-40 [Caenorhabditis elegans] 0.0
blast CAE68937 Hypothetical protein CBG14917 [Caenorhabditis briggsae] 0.0
blast T25893 hypothetical protein T19B4.7 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003961 EMBL-EBI Fibronectin, type III 7.9E-19
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.9E-12
Pfam IPR003961 EMBL-EBI Fibronectin, type III 6.0E-23
Pfam IPR003961 EMBL-EBI Fibronectin, type III 1.4E-6
Pfam IPR003961 EMBL-EBI Fibronectin, type III 3.3E-14
Pfam IPR003961 EMBL-EBI Fibronectin, type III 2.1E-16
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 0.11
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 4.5E-6
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 2.0E-7
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 2.4E-4
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491664.1 1 1085-1107
T19B4.7 1 1085-1107
Sequence
Target Sequence 
>C. ELEGANS:173385_AT
gcataattatacttctttttctacaaaaaactcccactttcattttacattacggtcatt
gttcattctttttgaagctcagctcaattattttctatgtacaaatcctttaatttttgt
attcctactgatctgttttatctgttcttatagtacgtattgaatcctgattacgaattt
ctggttaattttcaaaaattgacttgaaaatcgtttgaaagagtttcaaaatcccaaaat
ttccggtcttccttttttttcagttcatctaatttttcaagcccccacttgcatatgacg
aggtatacaaattgatcatgatttctcatcgcccacaaaacattctctttaataatttat
caaatgattgctctgttctctgctgctcccttgtcattctttccatgattttattatttt
tgcctttcacattttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCATAATTATACTTCTTTTTCTACA 539 307 4309 Antisense
TCTACAAAAAACTCCCACTTTCATT 279 557 4328 Antisense
CCACTTTCATTTTACATTACGGTCA 230 273 4342 Antisense
ATTACGGTCATTGTTCATTCTTTTT 280 13 4357 Antisense
GTTCATTCTTTTTGAAGCTCAGCTC 223 445 4369 Antisense
AGCTCAGCTCAATTATTTTCTATGT 641 79 4384 Antisense
TCCTTTAATTTTTGTATTCCTACTG 551 589 4414 Antisense
TTTGTATTCCTACTGATCTGTTTTA 161 667 4424 Antisense
CAAATGATTGCTCTGTTCTCTGCTG 571 193 4669 Antisense
TTGTCATTCTTTCCATGATTTTATT 575 707 4699 Antisense
TATTATTTTTGCCTTTCACATTTTT 408 663 4720 Antisense
Sequence Source GenBank