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[174706_at] alpha-catenin

Description CEK036D4R_rc /REP_DB=TREMBL Accession /GB=D33803 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk36d4 : 3prime end, single read.
Cluster 4grp_high_8_8 > 18      6grp_total > 57      4grp_total > 29      6grp_cgc > 37      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 164
1 2 3 4 range
A 154.6
(2.3)
P 		103.8
(-0.2)
P 		48.2
(-3)
P 		168.3
(3)
P 		120
B 110.2
(3)
P 		93.3
(1.5)
P 		40.3
(-3)
A 		75.2
(-0)
P 		70
C 182.2
(2)
P 		99.6
(-1.9)
P 		75.4
(-3)
P 		204.3
(3)
P 		129
avr 149
(3) 		98.9
(-0.2) 		54.6
(-3) 		149.3
(3) 		95

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 352
1 2 3 4 5 6 range
A 142.9
(-0.3)
P 		117.6
(-1.2)
P 		119.3
(-1.1)
P 		131
(-0.7)
P 		62.3
(-3)
A 		242
(3)
P 		180
B 118
(-1.9)
P 		159.2
(-1.2)
P 		94.1
(-2.3)
P 		132.8
(-1.6)
P 		52.9
(-3)
A 		400.9
(3)
P 		348
C 85.8
(-2.2)
P 		115.8
(-1.5)
P 		101
(-1.9)
P 		69.7
(-2.5)
P 		49.1
(-3)
A 		322.7
(3)
P 		274
avr 115.6
(-1.6) 		130.9
(-1.3) 		104.8
(-1.9) 		111.2
(-1.7) 		54.8
(-3) 		321.9
(3) 		267
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 51
1 2 3 4 range
A 56.3
(3)
P 		22.5
(-1.6)
P 		12.6
(-3)
P 		24.6
(-1.4)
P 		44
B 35.2
(3)
P 		23.1
(0.2)
P 		9.3
(-3)
A 		16
(-1.4)
P 		26
C 60.3
(3)
P 		28.6
(-2.6)
P 		26.3
(-3)
P 		34.4
(-1.6)
P 		34
avr 50.6
(3) 		24.7
(-1.5) 		16.1
(-3) 		25
(-1.5) 		35

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 136
1 2 3 4 5 6 range
A 26.3
(-1.9)
P 		41.8
(0.4)
P 		26
(-1.9)
P 		33.2
(-0.8)
P 		18.8
(-3)
A 		58.9
(3)
P 		40
B 41.1
(-2.1)
P 		53
(-1.5)
P 		22.9
(-2.9)
P 		35.2
(-2.4)
P 		21.5
(-3)
A 		149.5
(3)
P 		128
C 31.8
(-1.9)
P 		35.3
(-1.6)
P 		25.7
(-2.3)
P 		14
(-3)
P 		15.9
(-2.9)
A 		108
(3)
P 		94
avr 33.1
(-2) 		43.4
(-1.3) 		24.9
(-2.6) 		27.5
(-2.4) 		18.7
(-3) 		105.5
(3) 		87
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174706_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21890
Sequence Type Exemplar sequence
Representative Public ID CEK036D4R NCBI
Target Description CEK036D4R_rc /REP_DB=TREMBL Accession /GB=D33803 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk36d4 : 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 Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_073584
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
R13H4.4 ENSEMBL cdna:known chromosome:CEL140:V:11848465:11854752:1 gene:R13H4.4 A 
GENEFINDER00000036691 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:11848466:11854358:1 None
SNAP00000036683 ENSEMBL cdna:SNAP chromosome:CEL140:V:11848466:11854358:1 None
NM_073584 NCBI Caenorhabditis elegans R13H4.4 (alpha-catenin) mRNA, complete cds. 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:11851952-11852332(+) 99.21 100.0
Public Domain and Genome References
Gene Title alpha-catenin
Gene Symbol hmp-1
Ensembl R13H4.4
Entrez Gene 179624 Entrez gene
SwissProt P90947 EMBL-EBI
WormBase CE25089 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1598149_AT similar to catenin, alpha 2 cfa
CANINE_2:CFA.9512.1.A1_AT similar to catenin, alpha 2 cfa
CANINE_2:CFAAFFX.12905.1.S1_S_AT similar to catenin, alpha 2 cfa
CANINE_2:CFAAFFX.12908.1.S1_AT similar to catenin, alpha 2 cfa
CANINE_2:CFAAFFX.12938.1.S1_AT similar to catenin, alpha 2 cfa
DROSOPHILA_2:1632724_AT Catenin dm
DROSGENOME1:154527_AT Catenin dm
CHICKEN:GGA.2375.1.S1_AT catenin (cadherin-associated protein), alpha 2 gga
CHICKEN:GGA.2375.1.S2_AT catenin (cadherin-associated protein), alpha 2 gga
CHICKEN:GGAAFFX.24818.1.S1_AT catenin (cadherin-associated protein), alpha 2 gga
HG-U95AV2:208_AT catenin (cadherin-associated protein), alpha 2 hs
HC-G110:208_AT catenin (cadherin-associated protein), alpha 2 hs
HG-U95AV2:31841_AT catenin (cadherin-associated protein), alpha 2 hs
HU35KSUBD:RC_R37305_F_AT catenin (cadherin-associated protein), alpha 2 hs
HU35KSUBD:RC_H16079_F_AT catenin (cadherin-associated protein), alpha 2 hs
HUGENEFL:M94151_AT catenin (cadherin-associated protein), alpha 2 hs
HG-U133A:205373_AT catenin (cadherin-associated protein), alpha 2 hs
HG-U133_PLUS_2:205373_AT catenin (cadherin-associated protein), alpha 2 hs
HG-FOCUS:205373_AT catenin (cadherin-associated protein), alpha 2 hs
HG-U133A_2:205373_AT catenin (cadherin-associated protein), alpha 2 hs
U133_X3P:G7656998_3P_AT catenin (cadherin-associated protein), alpha 2 hs
HG-U95C:54645_AT catenin (cadherin-associated protein), alpha 2 hs
HG-U95B:42611_AT Catenin (cadherin-associated protein), alpha 2 hs
HG-U95C:66711_AT Catenin (cadherin-associated protein), alpha 2 hs
HU35KSUBA:AA082824_AT Catenin (cadherin-associated protein), alpha 2 hs
HU35KSUBD:RC_H10781_AT Catenin (cadherin-associated protein), alpha 2 hs
MOUSE430_2:1448895_A_AT catenin (cadherin associated protein), alpha 2 mm
MOE430A:1448895_A_AT catenin (cadherin associated protein), alpha 2 mm
MOUSE430A_2:1448895_A_AT catenin (cadherin associated protein), alpha 2 mm
MU11KSUBA:D25282_S_AT catenin (cadherin associated protein), alpha 2 mm
MG-U74AV2:92228_AT catenin (cadherin associated protein), alpha 2 mm
MG-U74AV2:92227_S_AT catenin (cadherin associated protein), alpha 2 mm
MG-U74AV2:161318_F_AT catenin (cadherin associated protein), alpha 2 mm
MU19KSUBB:TC25947_S_AT Catenin (cadherin associated protein), alpha 2 (Ctnna2), transcript variant 1, mRNA mm
RG-U34B:RC_AI058441_AT Catenin alpha 2 (predicted) rn
RG-U34C:RC_AI071716_AT Catenin alpha 2 (predicted) rn
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5913 cell-cell adherens junction inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
51015 actin filament binding traceable author statement QuickGO AmiGO
8013 beta-catenin binding inferred from physical interaction QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB61019 Hypothetical protein R13H4.4 [Caenorhabditis elegans] ref|NP_505985.1| R13H4.4 [Caenorhabditis elegans] gb|AAB94551.1| HMP-1 [Caenorhabditis elegans] 0.0
blast T24221 hypothetical protein R13H4.4 - Caenorhabditis elegans 0.0
blast CAE75281 Hypothetical protein CBG23248 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006077 EMBL-EBI Vinculin/alpha-catenin 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:174706_AT
tgccagtaccaaggttggttccctttctttaaacaaaacattaattattattcccacttg
atgtctgatactattgctttccagcatttatcacacatttcttttttcgtacagacgata
acggctgcttacgtaattcatttcaaatcagatggtatttcgcccactcttttgagtaga
cacgtggtttaaagtgccaatagaccagttgccttttgtacactgaattttg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCCAGTACCAAGGTTGGTTCCCTT 577 581 127 Antisense
ATTATTATTCCCACTTGATGTCTGA 57 15 170 Antisense
TGATGTCTGATACTATTGCTTTCCA 37 567 185 Antisense
TGCTTTCCAGCATTTATCACACATT 545 579 201 Antisense
CACACATTTCTTTTTTCGTACAGAC 32 195 218 Antisense
GTACAGACGATAACGGCTGCTTACG 179 461 235 Antisense
GGCTGCTTACGTAATTCATTTCAAA 140 541 249 Antisense
AATCAGATGGTATTTCGCCCACTCT 374 171 272 Antisense
TTCGCCCACTCTTTTGAGTAGACAC 194 697 285 Antisense
AGTGCCAATAGACCAGTTGCCTTTT 236 61 319 Antisense
GTTGCCTTTTGTACACTGAATTTTG 212 441 334 Antisense
Sequence Source Affymetrix Proprietary Database