[Home] | [Total List]

[173561_s_at]

Description C50907 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=R12C12.9 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C50907 /WB_GENE_ID=R12C12.9 /WP=CE02854 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk488g9 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 06      6grp_high1_10_10 > 60      4grp_highest_8_8 > 08      4grp_high_8_8 > 44      6grp_highest_nonorm > 66      6grp_total > 60      4grp_total > 51      6grp_highest_sub > 04      6grp_high1_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1346
1 2 3 4 range
A 1360.4
(0.9)
P 		1823.4
(3)
P 		1417.3
(1.2)
P 		477
(-3)
P 		1346
B 1184.5
(-0.1)
P 		1680.8
(3)
P 		1396.6
(1.3)
P 		705.9
(-3)
P 		975
C 1348
(1.1)
P 		1685.1
(3)
P 		1471
(1.8)
P 		621.3
(-3)
P 		1064
avr 1297.6
(0.7) 		1729.8
(3) 		1428.3
(1.4) 		601.4
(-3) 		1128

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 701
1 2 3 4 5 6 range
A 1649.2
(2.3)
P 		1079.3
(-2.7)
P 		1725.6
(3)
P 		1530.1
(1.3)
P 		1309.1
(-0.7)
P 		1045
(-3)
P 		681
B 1444.3
(-0.1)
P 		1400.7
(-0.6)
P 		1185.8
(-3)
P 		1719.3
(3)
P 		1312.1
(-1.6)
P 		1199.6
(-2.8)
P 		534
C 1144.9
(-1.8)
P 		1477.7
(1.6)
P 		1292.8
(-0.3)
P 		1613.8
(3)
P 		1090.6
(-2.3)
P 		1024.7
(-3)
P 		589
avr 1412.8
(0.6) 		1319.2
(-0.4) 		1401.4
(0.5) 		1621.1
(3) 		1237.3
(-1.3) 		1089.8
(-3) 		531
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 443
1 2 3 4 range
A 495.3
(3)
P 		395.8
(1.6)
P 		370.5
(1.2)
P 		69.8
(-3)
P 		426
B 377.7
(2.2)
P 		415.1
(3)
P 		323.6
(0.9)
P 		150.4
(-3)
P 		265
C 446.2
(2)
P 		484.5
(2.6)
P 		512.7
(3)
P 		104.8
(-3)
P 		408
avr 439.7
(3) 		431.8
(2.9) 		402.3
(2.3) 		108.3
(-3) 		331

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 279
1 2 3 4 5 6 range
A 304
(-0.9)
P 		383.9
(2.5)
P 		375.8
(2.2)
P 		388.1
(2.7)
P 		395
(3)
P 		254.4
(-3)
P 		141
B 502.6
(2.3)
P 		466.2
(1.4)
P 		287.9
(-3)
P 		455.4
(1.1)
P 		533.1
(3)
P 		447.3
(0.9)
P 		245
C 424.4
(1.7)
P 		450.9
(3)
P 		329
(-2.8)
P 		324.5
(-3)
P 		352.9
(-1.7)
P 		343
(-2.1)
P 		126
avr 410.3
(1.6) 		433.7
(3) 		330.9
(-3) 		389.3
(0.4) 		427
(2.6) 		348.2
(-2) 		103
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173561_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23589
Sequence Type Exemplar sequence
Representative Public ID C50907 NCBI
Target Description C50907 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=R12C12.9 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C50907 /WB_GENE_ID=R12C12.9 /WP=CE02854 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk488g9 : 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_062802(11), NM_182215(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062802 NCBI Caenorhabditis elegans R12C12.9a (R12C12.9) mRNA, complete cds. 11/11 None
NM_182215 NCBI Caenorhabditis elegans R12C12.9b (R12C12.9) mRNA, complete cds. 11/11 None
GENEFINDER00000025593 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:6023506:6024930:-1 11/11 None
R12C12.9a ENSEMBL cdna:known chromosome:CEL140:II:6023295:6024962:-1 gene:R12C12.9 11/11 None
R12C12.9b ENSEMBL cdna:known chromosome:CEL140:II:6023506:6024930:-1 gene:R12C12.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000025492 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:6023503-6024928(-) 100.0 100.0
Public Domain and Genome References
Ensembl R12C12.9
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_495203 R12C12.9a [Caenorhabditis elegans] gb|AAC46787.1| Hypothetical protein R12C12.9a [Caenorhabditis elegans] 1.0E-125
blast NP_872015 R12C12.9b [Caenorhabditis elegans] gb|AAN60495.1| Hypothetical protein R12C12.9b [Caenorhabditis elegans] 1.0E-123
blast NP_872015 R12C12.9b [Caenorhabditis elegans] gb|AAN60495.1| Hypothetical protein R12C12.9b [Caenorhabditis elegans] 1.0E-121
blast NP_495203 R12C12.9a [Caenorhabditis elegans] gb|AAC46787.1| Hypothetical protein R12C12.9a [Caenorhabditis elegans] 1.0E-121
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_495203.1 4 15-34,81-103,123-145,205-227
NP_872015.1 4 15-34,81-103,123-145,200-222
R12C12.9a 4 15-34,81-103,123-145,205-227
R12C12.9b 4 15-34,81-103,123-145,200-222
GENEFINDER00000025593 4 15-34,81-103,123-145,205-227
Sequence
Target Sequence 
>C. ELEGANS:173561_S_AT
agctcttattcttccaattgcatataggatttttgatgatacggttaagaagaacaaacc
aggatttgactggtcaccagaagaaaaagaaattctggaagtgtacaaattacaaatgct
ctttctttgggtcatttcagcaatcggagtgatactttgcatttttgtgatgattccaca
gttctttgattttaatgataagaagggaaatccaagtcacttgtgtttggttcgtcgtaa
actggcttgggtgatgttcttggttattgcagtctacgttgtcgttcttggaatagcagt
attctgggcttggactgatggcggagctgcgtccaagcattttcatactcactttgaagg
agctgaaaaagaagaaatctatatcacagaactggaagaagcattcgattgtgaatcaga
tgatgatcaagaggttgctgaagtgacgatgtgttgggagaaggtgaacaaaacatttat
ctctcacacatggctggatattctcttcattgcgtacatttccggccatattttggtttt
cctttccttgccatttttcaacaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCTCTTATTCTTCCAATTGCATAT 142 81 136 Antisense
ATGCTCTTTCTTTGGGTCATTTCAG 406 43 251 Antisense
AAGTCACTTGTGTTTGGTTCGTCGT 456 155 349 Antisense
ACTGGCTTGGGTGATGTTCTTGGTT 389 97 376 Antisense
GTTATTGCAGTCTACGTTGTCGTTC 53 449 398 Antisense
GTATTCTGGGCTTGGACTGATGGCG 89 453 434 Antisense
TGCGTCCAAGCATTTTCATACTCAC 127 583 463 Antisense
AACATTTATCTCTCACACATGGCTG 136 137 607 Antisense
TGGATATTCTCTTCATTGCGTACAT 312 551 630 Antisense
TCATTGCGTACATTTCCGGCCATAT 174 619 642 Antisense
TCCTTTCCTTGCCATTTTTCAACAA 454 591 675 Antisense
Sequence Source Affymetrix Proprietary Database