[Home] | [Total List]

[181922_at]

Description Y87G2A.3 /REP_DB=WormBase Gene ID /WP=CE23129 /TR=Q9NA30 /GB=CAB54483.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 19      6grp_high1_10_10 > 91      4grp_highest_8_8 > 26      4grp_high_8_8 > 58      6grp_highest_nonorm > 62      6grp_total > 92      4grp_total > 61      6grp_highest_sub > 05      6grp_high1_sub > 05      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 157
1 2 3 4 range
A 428.5
(2.9)
P 		317.9
(-3)
P 		430.6
(3)
P 		318
(-3)
P 		113
B 458.9
(2.5)
P 		413.8
(0.6)
P 		470.2
(3)
P 		328.6
(-3)
P 		142
C 474.7
(3)
P 		447.9
(1.9)
P 		474.6
(3)
P 		334
(-3)
P 		141
avr 454
(2.8) 		393.2
(0) 		458.5
(3) 		326.9
(-3) 		132

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 150
1 2 3 4 5 6 range
A 495.6
(1.1)
P 		518.1
(2)
P 		463.9
(-0.2)
P 		464.2
(-0.2)
P 		541.6
(3)
P 		395.7
(-3)
P 		146
B 522.8
(2.6)
P 		391.6
(-3)
P 		475.3
(0.6)
P 		532.7
(3)
P 		490.8
(1.2)
P 		438.4
(-1)
P 		141
C 441.7
(-3)
P 		486.6
(0.3)
P 		517.4
(2.6)
P 		453.8
(-2.1)
P 		522.8
(3)
P 		493.2
(0.8)
P 		81
avr 486.7
(0.5) 		465.4
(-1.2) 		485.5
(0.4) 		483.6
(0.3) 		518.4
(3) 		442.4
(-3) 		76
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 119
1 2 3 4 range
A 156
(3)
P 		69
(-1.8)
P 		112.6
(0.6)
P 		46.5
(-3)
P 		110
B 146.3
(3)
P 		102.2
(-0.5)
P 		108.9
(0.1)
P 		70
(-3)
P 		76
C 157.1
(2.5)
P 		128.8
(1)
P 		165.4
(3)
P 		56.3
(-3)
P 		109
avr 153.1
(3) 		100
(-0.3) 		129
(1.5) 		57.6
(-3) 		96

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 108
1 2 3 4 5 6 range
A 91.4
(-3)
P 		184.3
(3)
P 		101
(-2.4)
P 		117.7
(-1.3)
P 		163.4
(1.7)
P 		96.3
(-2.7)
P 		93
B 181.9
(1.8)
P 		130.4
(-1.9)
P 		115.4
(-3)
P 		141.1
(-1.2)
P 		199.4
(3)
P 		163.5
(0.4)
P 		84
C 163.7
(2.6)
P 		148.5
(1.4)
P 		131.7
(0.1)
P 		91.3
(-3)
P 		169.2
(3)
P 		165.1
(2.7)
P 		78
avr 145.7
(-0.1) 		154.4
(0.8) 		116
(-3) 		116.7
(-2.9) 		177.3
(3) 		141.6
(-0.5) 		61
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 181922_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1970
Sequence Type Exemplar sequence
Representative Public ID Y87G2A.3 NCBI
Target Description Y87G2A.3 /REP_DB=WormBase Gene ID /WP=CE23129 /TR=Q9NA30 /GB=CAB54483.1 /SUBMIT=HINXTON /CHR=1 /FEA=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_060974(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060974 NCBI Caenorhabditis elegans Y87G2A.3 (Y87G2A.3) mRNA, complete cds. 11/11 None
SNAP00000019586 ENSEMBL cdna:SNAP chromosome:CEL140:I:13538297:13555218:-1 11/11 None
GENEFINDER00000019608 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:13545254:13550433:-1 11/11 None
Y87G2A.3 ENSEMBL cdna:known chromosome:CEL140:I:13545093:13550529:-1 gene:Y87G2A.3 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
chrI:13545184-13550364(-) 98.38 100.0
Public Domain and Genome References
Gene Title
Ensembl Y87G2A.3
Entrez Gene 190777 Entrez gene
SwissProt Q9NA30 EMBL-EBI
WormBase CE23129 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:20014_AT autophagy 4a (APG4a) at
CANINE:1588446_S_AT similar to autophagy-related cysteine endopeptidase 2 isoform a cfa
CANINE_2:CFA.19434.1.S1_S_AT similar to autophagy-related cysteine endopeptidase 2 isoform a cfa
CANINE_2:CFA.3041.1.A1_AT similar to autophagy-related cysteine endopeptidase 2 isoform a cfa
CANINE_2:CFAAFFX.27591.1.S1_AT similar to autophagy-related cysteine endopeptidase 2 isoform a cfa
CANINE_2:CFAAFFX.27591.1.S1_S_AT similar to autophagy-related cysteine endopeptidase 2 isoform a cfa
HU35KSUBA:RC_AA453415_AT ATG4 autophagy related 4 homolog A (S. cerevisiae) hs
U133_X3P:HS.8763.0.S1_3P_AT ATG4 autophagy related 4 homolog A (S. cerevisiae) hs
HG-U133A_2:213115_AT ATG4 autophagy related 4 homolog A (S. cerevisiae) hs
HG-U133_PLUS_2:213115_AT ATG4 autophagy related 4 homolog A (S. cerevisiae) hs
HG-U133A:213115_AT ATG4 autophagy related 4 homolog A (S. cerevisiae) hs
HG-U95AV2:37957_AT ATG4 autophagy related 4 homolog A (S. cerevisiae) hs
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB54483 Hypothetical protein Y87G2A.3 [Caenorhabditis elegans] ref|NP_493375.1| Y87G2A.3 [Caenorhabditis elegans] 0.0
blast CAE72613 Hypothetical protein CBG19805 [Caenorhabditis briggsae] 0.0
blast CAE72613 Hypothetical protein CBG19805 [Caenorhabditis briggsae] 1.0E-156
blast CAB54484 Hypothetical protein Y87G2A.4 [Caenorhabditis elegans] ref|NP_493376.1| RAB family member (rab-27) [Caenorhabditis elegans] dbj|BAD07035.1| Rab27 [Caenorhabditis elegans] 1.0E-81
blast CAG32326 hypothetical protein [Gallus gallus] sp|Q5ZIW7|ATG4A_CHICK Cysteine protease ATG4A (Autophagy-related protein 4 homolog A) 3.0E-72
Protein Domains
Database ID Description E-Value
Pfam IPR001806 EMBL-EBI Ras GTPase superfamily 5.7E-73
Pfam IPR005078 EMBL-EBI Peptidase C54 6.7E-43
Pfam IPR005078 EMBL-EBI Peptidase C54 9.0E-30
Pfam IPR005078 EMBL-EBI Peptidase C54 3.0E-8
Pfam IPR005078 EMBL-EBI Peptidase C54 6.4E-56
Pfam IPR005078 EMBL-EBI Peptidase C54 9.0E-30
Pfam IPR005078 EMBL-EBI Peptidase C54 3.0E-8
Sequence
Target Sequence 
>C. ELEGANS:181922_AT
aatgcgtcggaattatcggtggtcgaccaaatcatgctctatactttgttggaatgtctg
gttcgaaacttttctatctggatcctcactattgccggccaaaaactgaatcgacggcca
aaatgtatgcagaaaaagattccacggccaccaccgatgacgtaggcttcagtcatttgg
aagaacttgttccattaccatctcaaaccgcagacgtttacacgaaaatggatgattcca
cgtatcattgtcaaatgatgttatggattgagtatgagaatgtggatccttcactcgcgt
tggcaatgttttgtgagacacgtgacgagtttgaaaatctgtgcgagacccttcaaaaaa
ccacattgcctgcctcccaaccgcccatgttcgagtttttgcagcggcggcccaagtatt
tgccaaaattcgaaccatacactggcgtttcgatgaagattgagatgaaggaattcgatg
acatcggcgccgcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATGCGTCGGAATTATCGGTGGTCG 333 167 905 Antisense
GTGGTCGACCAAATCATGCTCTATA 535 489 923 Antisense
TTCTATCTGGATCCTCACTATTGCC 362 691 976 Antisense
GCCACCACCGATGACGTAGGCTTCA 319 277 1051 Antisense
GAACTTGTTCCATTACCATCTCAAA 87 351 1087 Antisense
TGAGAATGTGGATCCTTCACTCGCG 411 569 1179 Antisense
TTCACTCGCGTTGGCAATGTTTTGT 486 687 1194 Antisense
GCCCATGTTCGAGTTTTTGCAGCGG 397 287 1287 Antisense
TTGCAGCGGCGGCCCAAGTATTTGC 438 683 1303 Antisense
GAACCATACACTGGCGTTTCGATGA 546 345 1336 Antisense
GGAATTCGATGACATCGGCGCCGCC 532 531 1374 Antisense
Sequence Source Affymetrix Proprietary Database