[Home] | [Total List]

[173749_at]

Description AV190078 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F49C12.12 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV190078 /WB_GENE_ID=F49C12.12 /WP=CE03372 /CHR=4 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk566e9 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 03      6grp_high1_10_10 > 22      4grp_highest_8_8 > 01      4grp_high_8_8 > 45      6grp_highest_nonorm > 36      6grp_total > 22      4grp_total > 50      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3399
1 2 3 4 range
A 4262.4
(0)
P 		4506.1
(1.7)
P 		4686.7
(3)
P 		3830
(-3)
P 		857
B 3682.3
(-3)
P 		6346.5
(3)
P 		5150.5
(0.3)
P 		3752.8
(-2.8)
P 		2664
C 4822
(-0.2)
P 		6607.3
(3)
P 		5318.7
(0.7)
P 		3208.7
(-3)
P 		3399
avr 4255.6
(-1.2) 		5820
(3) 		5052
(0.9) 		3597.2
(-3) 		2223

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2113
1 2 3 4 5 6 range
A 3903.4
(0.5)
P 		4573.5
(3)
P 		4531.5
(2.8)
P 		3851.4
(0.3)
P 		4292.1
(1.9)
P 		2978.5
(-3)
P 		1595
B 5091.8
(3)
P 		4535.1
(1.4)
P 		4333.8
(0.8)
P 		4430.7
(1.1)
P 		4046.1
(-0.1)
P 		3035.8
(-3)
P 		2056
C 3923.4
(0.4)
P 		4239.8
(1.7)
P 		3733.4
(-0.4)
P 		4552.5
(3)
P 		3364.6
(-1.9)
P 		3112.6
(-3)
P 		1440
avr 4306.2
(2.4) 		4449.5
(3) 		4199.6
(1.9) 		4278.2
(2.3) 		3900.9
(0.7) 		3042.3
(-3) 		1407
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1359
1 2 3 4 range
A 1552
(3)
P 		978.2
(-0.5)
P 		1225.2
(1)
P 		560.6
(-3)
P 		991
B 1174.3
(-0.1)
P 		1567.5
(3)
P 		1193.5
(0.1)
P 		799.7
(-3)
P 		768
C 1596.2
(1.7)
P 		1899.6
(3)
P 		1853.7
(2.8)
P 		541
(-3)
P 		1359
avr 1440.8
(2.7) 		1481.8
(3) 		1424.1
(2.6) 		633.8
(-3) 		848

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1052
1 2 3 4 5 6 range
A 719.6
(-3)
P 		1626.6
(3)
P 		986.9
(-1.2)
P 		976.8
(-1.3)
P 		1295.2
(0.8)
P 		725.2
(-3)
P 		907
B 1771.7
(3)
P 		1509.5
(0.8)
P 		1052.4
(-3)
P 		1173.5
(-2)
P 		1643.9
(1.9)
P 		1132
(-2.3)
P 		719
C 1454.2
(3)
P 		1293.7
(1.2)
P 		950.2
(-2.6)
P 		915.5
(-3)
P 		1088.7
(-1.1)
P 		1042
(-1.6)
P 		539
avr 1315.2
(1.1) 		1476.6
(3) 		996.5
(-2.6) 		1021.9
(-2.3) 		1342.6
(1.4) 		966.4
(-3) 		510
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173749_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24545
Sequence Type Exemplar sequence
Representative Public ID AV190078 NCBI
Target Description AV190078 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F49C12.12 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV190078 /WB_GENE_ID=F49C12.12 /WP=CE03372 /CHR=4 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk566e9 : 5prime 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_069234(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069234 NCBI Caenorhabditis elegans F49C12.12 (F49C12.12) mRNA, complete cds. 11/11 None
F49C12.12.2 ENSEMBL cdna:known chromosome:CEL140:IV:9320099:9321066:-1 gene:F49C12.12 11/11 None
F49C12.12.1 ENSEMBL cdna:known chromosome:CEL140:IV:9320102:9321068:-1 gene:F49C12.12 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
chrIV:9320227-9321068(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F49C12.12
Entrez Gene 177755 Entrez gene
SwissProt Q20589 EMBL-EBI
WormBase CE03372 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA92515 Hypothetical protein F49C12.12 [Caenorhabditis elegans] ref|NP_501635.1| F49C12.12 [Caenorhabditis elegans] 4.0E-51
blast CAE74050 Hypothetical protein CBG21702 [Caenorhabditis briggsae] 3.0E-49
blast AAY66731 salivary secreted ribonuclease [Ixodes scapularis] 4.0E-10
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501635.1 2 20-42,66-85
F49C12.12.2 2 20-42,66-85
F49C12.12.1 2 20-42,66-85
Sequence
Target Sequence 
>C. ELEGANS:173749_AT
gcacaaatcttttgagccttctatatctgcatcaattgttcacatcgtcgtatcctgatt
ctctcgcgatccataatttttcgaatttcccccttaaaatcgtctctgcttttagagacg
tgctcatttcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCACAAATCTTTTGAGCCTTCTATA 396 317 287 Antisense
AAATCTTTTGAGCCTTCTATATCTG 259 117 291 Antisense
TTTTGAGCCTTCTATATCTGCATCA 597 677 296 Antisense
AGCCTTCTATATCTGCATCAATTGT 662 83 301 Antisense
TATCTGCATCAATTGTTCACATCGT 428 659 310 Antisense
CAATTGTTCACATCGTCGTATCCTG 652 179 319 Antisense
TGTTCACATCGTCGTATCCTGATTC 129 563 323 Antisense
ATTCTCTCGCGATCCATAATTTTTC 438 9 344 Antisense
GCGATCCATAATTTTTCGAATTTCC 90 289 352 Antisense
CCCTTAAAATCGTCTCTGCTTTTAG 575 259 377 Antisense
TGCTTTTAGAGACGTGCTCATTTCC 574 579 393 Antisense
Sequence Source Affymetrix Proprietary Database