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[173890_at] Adaptor complexes medium subunit family

Description CEK040F7R_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C27H6.1 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D34082 /WB_GENE_ID=C27H6.1 /WP=CE08425 /CHR=5 /FEA=Genomic Cluster /DEF=Adaptor complexes medium subunit family; C.elegans cDNA clone yk40f7 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 50      6grp_high1_10_10 > 16      4grp_highest_8_8 > 59      4grp_high_8_8 > 25      6grp_highest_nonorm > 40      6grp_total > 04      4grp_total > 38      6grp_highest_sub > De      6grp_cgc > 13      6grp_high1_sub > De      6grp_cgc_sub > De      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1267
1 2 3 4 range
A 1224
(3)
P 		542.5
(-1.2)
P 		240.5
(-3)
P 		607.9
(-0.8)
P 		984
B 1507.5
(3)
P 		567.4
(-1.8)
P 		331.8
(-3)
P 		614.1
(-1.6)
P 		1176
C 1314.1
(3)
P 		518.1
(-3)
P 		520.7
(-3)
P 		602.9
(-2.4)
P 		796
avr 1348.5
(3) 		542.7
(-1.9) 		364.3
(-3) 		608.3
(-1.5) 		984

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 912
1 2 3 4 5 6 range
A 1148.5
(3)
P 		664.8
(-0.5)
P 		487.8
(-1.8)
P 		458.1
(-2)
P 		383.7
(-2.6)
P 		323.4
(-3)
P 		825
B 1156.9
(3)
P 		1010.8
(1.9)
P 		363.7
(-2.8)
P 		572
(-1.3)
P 		355.9
(-2.9)
P 		338.6
(-3)
P 		818
C 1063.7
(3)
P 		853.2
(1.5)
P 		380.7
(-2)
P 		539.8
(-0.8)
P 		413
(-1.8)
P 		244.9
(-3)
P 		819
avr 1123
(3) 		842.9
(1) 		410.7
(-2.2) 		523.3
(-1.4) 		384.2
(-2.4) 		302.3
(-3) 		821
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 418
1 2 3 4 range
A 445.7
(3)
P 		117.8
(-2.1)
P 		62.9
(-3)
P 		89
(-2.6)
P 		383
B 480.7
(3)
P 		140.1
(-2.1)
P 		76.9
(-3)
P 		130.9
(-2.2)
P 		404
C 435
(3)
P 		149
(-2.1)
P 		181.5
(-1.6)
P 		101.7
(-3)
P 		333
avr 453.8
(3) 		135.6
(-2.5) 		107.1
(-3) 		107.2
(-3) 		347

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 324
1 2 3 4 5 6 range
A 211.7
(2.1)
P 		236.4
(3)
P 		106.2
(-2)
P 		116.2
(-1.6)
P 		115.8
(-1.6)
P 		78.7
(-3)
P 		158
B 402.5
(3)
P 		336.4
(1.7)
P 		88.3
(-3)
P 		151.5
(-1.8)
P 		144.6
(-1.9)
P 		126.3
(-2.3)
P 		314
C 394.3
(3)
P 		260.3
(0.4)
P 		96.9
(-2.7)
P 		108.5
(-2.5)
P 		133.6
(-2)
P 		82
(-3)
P 		312
avr 336.2
(3) 		277.7
(1.5) 		97.1
(-3) 		125.4
(-2.3) 		131.3
(-2.1) 		95.7
(-3) 		241
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173890_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.25207
Sequence Type Exemplar sequence
Representative Public ID CEK040F7R NCBI
Target Description CEK040F7R_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C27H6.1 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D34082 /WB_GENE_ID=C27H6.1 /WP=CE08425 /CHR=5 /FEA=Genomic Cluster /DEF=Adaptor complexes medium subunit family; C.elegans cDNA clone yk40f7 : 3prime end, single read.
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_073165(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073165 NCBI Caenorhabditis elegans AdaPTin or adaptin-related protein family member (apt-10) (apt-10) mRNA, complete cds. 11/11 None
C27H6.1 ENSEMBL cdna:known chromosome:CEL140:V:9968986:9978700:-1 gene:C27H6.1 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
chrV:9968996-9978701(-) 97.54 100.0
Public Domain and Genome References
Gene Title Adaptor complexes medium subunit family
Gene Symbol apt-10
Ensembl C27H6.1
Entrez Gene 179387 Entrez gene
SwissProt P90761 EMBL-EBI
WormBase CE08425 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CHICKEN:GGAAFFX.6689.1.S1_AT similar to RIKEN cDNA 4933401N24 gga
HG-U133_PLUS_2:227461_AT stonin 2 hs
HG-U133B:227461_AT stonin 2 hs
HU35KSUBA:RC_AA019498_AT stonin 2 hs
U133_X3P:HS2.336428.1.A1_3P_A_AT stonin 2 hs
U133_X3P:HS.23071.0.A1_3P_AT stonin 2 hs
HG-U133_PLUS_2:1552543_A_AT stonin 2 hs
HG-U95C:60855_AT stonin 2 hs
MOE430B:1459153_AT RIKEN cDNA 4933401N24 gene mm
MOUSE430_2:1459153_AT RIKEN cDNA 4933401N24 gene mm
MG-U74CV2:132032_AT RIKEN cDNA 4933401N24 gene (4933401N24Rik), mRNA mm
MG-U74CV2:134159_AT RIKEN cDNA 4933401N24 gene (4933401N24Rik), mRNA mm
MU19KSUBA:TC19534_AT RIKEN cDNA 4933401N24 gene (4933401N24Rik), mRNA mm
RAE230B:1380981_AT Similar to stonin 2; homolog of stoned B (Drosophila) (predicted) rn
RAT230_2:1380981_AT Similar to stonin 2; homolog of stoned B (Drosophila) (predicted) rn
RAE230B:1398651_AT Similar to stonin 2; homolog of stoned B (Drosophila) (predicted) rn
RAT230_2:1398651_AT Similar to stonin 2; homolog of stoned B (Drosophila) (predicted) rn
RG-U34B:RC_AI045148_AT Similar to stonin 2; homolog of stoned B (Drosophila) (predicted) rn
Protein Similarities
Method ID Description E-Value
blast CAB02795 Hypothetical protein C27H6.1 [Caenorhabditis elegans] ref|NP_505566.1| AdaPTin or adaptin-related protein family member (apt-10) [Caenorhabditis elegans] sp|P90761|STNB_CAEEL Putative stoned B-like protein (Unc-41) 0.0
blast CAE72291 Hypothetical protein CBG19421 [Caenorhabditis briggsae] 0.0
blast EAA06689 ENSANGP00000022043 [Anopheles gambiae str. PEST] ref|XP_310748.2| ENSANGP00000022043 [Anopheles gambiae str. PEST] 1.0E-124
Sequence
Target Sequence 
>C. ELEGANS:173890_AT
tattaaatcgttttgttgtgcttcaaatatagctttaaaattctagtaacttattaattt
tcatattttattttcaaaagtattttaatattattttcaatttttccgatgctcgtttca
cttcaaaatctcaccccaaatagcttcacattgtgatctctttcatttgtttttttgcaa
taat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TATTAAATCGTTTTGTTGTGCTTCA 631 661 4990 Antisense
GTTGTGCTTCAAATATAGCTTTAAA 459 437 5004 Antisense
ATTCTAGTAACTTATTAATTTTCAT 522 7 5029 Antisense
AATTTTTCCGATGCTCGTTTCACTT 400 175 5088 Antisense
TTTCCGATGCTCGTTTCACTTCAAA 165 671 5092 Antisense
GCTCGTTTCACTTCAAAATCTCACC 35 299 5100 Antisense
CACTTCAAAATCTCACCCCAAATAG 233 147 5108 Antisense
CAAAATCTCACCCCAAATAGCTTCA 151 191 5113 Antisense
CTCACCCCAAATAGCTTCACATTGT 317 229 5119 Antisense
TTCACATTGTGATCTCTTTCATTTG 110 687 5134 Antisense
CTTTCATTTGTTTTTTTGCAATAAT 205 223 5149 Antisense
Sequence Source Affymetrix Proprietary Database