[Home] | [Total List]

[173922_s_at]

Description CE06B12 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=K07H8.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=M75893 /WB_GENE_ID=K07H8.2 /WP=CE18022 /CHR=4 /FEA=Genomic Cluster /DEF=CEL06B12 Chris Martin sorted cDNA library Caenorhabditis elegans cDNA clone cm06b12 5prime, mRNA sequence.
Cluster 6grp_highest_10_10 > 95      6grp_high1_10_10 > 69      4grp_highest_8_8 > 57      4grp_high_8_8 > 34      6grp_highest_nonorm > 86      6grp_total > 79      4grp_total > 45      6grp_highest_sub > Cu      6grp_high1_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 266
1 2 3 4 range
A 1069.9
(3)
P 		937.1
(-3)
P 		1000.3
(-0.1)
P 		941.8
(-2.8)
P 		133
B 1026.4
(1.5)
P 		1093.6
(3)
P 		827.5
(-3)
P 		918.4
(-1)
P 		266
C 1058.7
(3)
P 		951.9
(-0.5)
P 		930.5
(-1.2)
P 		874.2
(-3)
P 		185
avr 1051.7
(3) 		994.2
(0.5) 		919.4
(-2.7) 		911.5
(-3) 		140

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 543
1 2 3 4 5 6 range
A 881.9
(-1.1)
P 		1034
(0.6)
P 		711.1
(-3)
P 		994.5
(0.1)
P 		904.9
(-0.9)
P 		1254.4
(3)
P 		543
B 897.1
(-0.2)
P 		972
(1)
P 		728.7
(-3)
P 		893.3
(-0.3)
P 		892.2
(-0.3)
P 		1093.3
(3)
P 		365
C 1008.8
(1.4)
P 		1058.2
(3)
P 		977.3
(0.5)
P 		867.4
(-3)
P 		1024.2
(1.9)
P 		1013.7
(1.6)
P 		191
avr 929.3
(-0.6) 		1021.4
(1.1) 		805.7
(-3) 		918.4
(-0.9) 		940.4
(-0.4) 		1120.5
(3) 		315
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 252
1 2 3 4 range
A 389.5
(3)
P 		203.4
(-1.4)
P 		261.5
(-0.1)
P 		137.9
(-3)
P 		252
B 327.3
(3)
P 		270.1
(0.5)
P 		191.8
(-3)
P 		195.7
(-2.8)
P 		136
C 350.4
(3)
P 		273.7
(0.7)
P 		324.3
(2.2)
P 		147.4
(-3)
P 		203
avr 355.7
(3) 		249.1
(-0.3) 		259.2
(0) 		160.3
(-3) 		195

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 253
1 2 3 4 5 6 range
A 162.6
(-2.8)
P 		367.7
(3)
P 		154.9
(-3)
P 		252.2
(-0.3)
P 		273.1
(0.3)
P 		305.4
(1.2)
P 		213
B 312.1
(0.5)
P 		323.6
(0.8)
P 		176.9
(-3)
P 		236.6
(-1.4)
P 		362.5
(1.8)
P 		407.7
(3)
P 		231
C 373.9
(3)
P 		322.9
(1.5)
P 		248.7
(-0.8)
P 		174.4
(-3)
P 		331.4
(1.7)
P 		339.3
(2)
P 		200
avr 282.9
(0.4) 		338.1
(2.5) 		193.5
(-3) 		221.1
(-1.9) 		322.3
(1.9) 		350.8
(3) 		157
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173922_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24543
Sequence Type Exemplar sequence
Representative Public ID CE06B12 NCBI
Target Description CE06B12 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=K07H8.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=M75893 /WB_GENE_ID=K07H8.2 /WP=CE18022 /CHR=4 /FEA=Genomic Cluster /DEF=CEL06B12 Chris Martin sorted cDNA library Caenorhabditis elegans cDNA clone cm06b12 5prime, mRNA sequence.
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_068993(11), NM_068992(11), NM_001028102(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068993 NCBI Caenorhabditis elegans K07H8.2b (K07H8.2) mRNA, complete cds. 11/11 None
NM_068992 NCBI Caenorhabditis elegans K07H8.2a (K07H8.2) mRNA, complete cds. 11/11 None
NM_001028102 NCBI Caenorhabditis elegans K07H8.2c (K07H8.2) mRNA, complete cds. 11/11 None
SNAP00000006922 ENSEMBL cdna:SNAP chromosome:CEL140:IV:8292817:8294263:1 11/11 None
GENEFINDER00000006924 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:8291567:8294263:1 11/11 None
K07H8.2b.2 ENSEMBL cdna:known chromosome:CEL140:IV:8291521:8294263:1 gene:K07H8.2 11/11 None
K07H8.2a ENSEMBL cdna:known chromosome:CEL140:IV:8291567:8294578:1 gene:K07H8.2 11/11 None
K07H8.2c ENSEMBL cdna:known chromosome:CEL140:IV:8292758:8294263:1 gene:K07H8.2 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:8291573-8294270(+) 100.0 100.0
Public Domain and Genome References
Ensembl K07H8.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK82908 Hypothetical protein K07H8.2b [Caenorhabditis elegans] ref|NP_501394.1| K07H8.2b [Caenorhabditis elegans] 0.0
blast AAC04427 Hypothetical protein K07H8.2a [Caenorhabditis elegans] ref|NP_501393.1| K07H8.2a [Caenorhabditis elegans] 0.0
blast CAE58449 Hypothetical protein CBG01586 [Caenorhabditis briggsae] 0.0
blast AAV34788 Hypothetical protein K07H8.2c [Caenorhabditis elegans] ref|NP_001023273.1| K07H8.2c [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006667 EMBL-EBI MgtE integral membrane region 1.1E-50
Pfam IPR006667 EMBL-EBI MgtE integral membrane region 2.2E-9
Pfam IPR006667 EMBL-EBI MgtE integral membrane region 1.1E-50
Pfam IPR006667 EMBL-EBI MgtE integral membrane region 2.2E-9
Pfam IPR006667 EMBL-EBI MgtE integral membrane region 1.1E-50
Pfam IPR006667 EMBL-EBI MgtE integral membrane region 2.2E-9
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501394.1 9 85-107,173-195,207-229,244-266,273-291,306-325,398-420,435-457,469-491
NP_501393.1 9 89-111,177-199,211-233,248-270,277-295,310-329,402-424,439-461,473-495
NP_001023273.1 9 12-34,99-121,133-155,170-192,199-217,232-251,324-346,361-383,395-417
K07H8.2b.2 9 85-107,173-195,207-229,244-266,273-291,306-325,398-420,435-457,469-491
K07H8.2a 9 89-111,177-199,211-233,248-270,277-295,310-329,402-424,439-461,473-495
K07H8.2c 9 12-34,99-121,133-155,170-192,199-217,232-251,324-346,361-383,395-417
SNAP00000006922 9 12-34,99-121,133-155,170-192,199-217,232-251,324-346,361-383,395-417
GENEFINDER00000006924 9 85-107,173-195,207-229,244-266,273-291,306-325,398-420,435-457,469-491
Sequence
Target Sequence 
>C. ELEGANS:173922_S_AT
tcaagccagcagactctctacttatttccataaagccggcacagttggagttcttccgaa
tgaatggactgtcagtcgatttaccagtgttcagcgtgcattcttctcaaaagaatggga
ttctcgatcggctcgagttcttttgttactcgttgttcctggtcatatttgcttcaattt
ccttatccagttattcactttgacttcaaagaataatgtgacaccccatggaccactttt
caccagtctttatatgattgcggcaatcattcaggttgtcatacttctattcgtttgtca
acttctcgtcgctcttctttggaaatggaaaattgacccagataattctgtgattccata
tcttacagctcttggagatctcctaggaaccggactcctattcatagtattcctcactac
tgaccatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAAGCCAGCAGACTCTCTACTTAT 538 631 1079 Antisense
GCCGGCACAGTTGGAGTTCTTCCGA 320 281 1113 Antisense
GTCAGTCGATTTACCAGTGTTCAGC 25 467 1149 Antisense
TGTTCAGCGTGCATTCTTCTCAAAA 53 563 1166 Antisense
AGAATGGGATTCTCGATCGGCTCGA 23 75 1190 Antisense
GTTGTTCCTGGTCATATTTGCTTCA 36 437 1230 Antisense
ATTTGCTTCAATTTCCTTATCCAGT 48 19 1245 Antisense
CTATTCGTTTGTCAACTTCTCGTCG 609 223 1365 Antisense
GTGATTCCATATCTTACAGCTCTTG 121 485 1428 Antisense
TGGAGATCTCCTAGGAACCGGACTC 456 549 1451 Antisense
ATAGTATTCCTCACTACTGACCATT 17 21 1482 Antisense
Sequence Source Affymetrix Proprietary Database