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[174015_at] mitochondrial RNA splicing MSR4 like protein

Description AV186325 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=W02B12.9 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV186325 /WB_GENE_ID=W02B12.9 /WP=CE03769 /CHR=2 /FEA=Genomic Cluster /DEF=mitochondrial RNA splicing MSR4 like protein; Caenorhabditis elegans cDNA clone:yk498c1 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 71      6grp_high1_10_10 > 28      4grp_highest_8_8 > 53      4grp_high_8_8 > 09      6grp_highest_nonorm > 70      6grp_total > 17      4grp_total > 23      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 286
1 2 3 4 range
A 519.7
(3)
P 		334
(-1.8)
P 		287.1
(-3)
P 		511.1
(2.8)
P 		233
B 524.2
(3)
P 		264.7
(-3)
P 		351.7
(-1)
P 		324
(-1.6)
P 		260
C 522.5
(2.2)
P 		334.7
(-3)
P 		334.6
(-3)
P 		550.7
(3)
P 		216
avr 522.1
(3) 		311.1
(-3) 		324.5
(-2.6) 		461.9
(1.3) 		211

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 461
1 2 3 4 5 6 range
A 363.7
(3)
P 		311.6
(1.7)
P 		246.3
(-0)
P 		132.1
(-3)
P 		191.3
(-1.5)
P 		217.3
(-0.8)
P 		232
B 373.9
(3)
P 		287.4
(0.7)
P 		152.2
(-3)
P 		156.2
(-2.9)
P 		208.2
(-1.5)
P 		219.2
(-1.2)
P 		222
C 593
(3)
P 		232.7
(-2.1)
P 		223.2
(-2.3)
P 		188.1
(-2.8)
P 		247.1
(-1.9)
P 		173
(-3)
P 		420
avr 443.5
(3) 		277.2
(-0.5) 		207.2
(-2) 		158.8
(-3) 		215.5
(-1.8) 		203.2
(-2.1) 		285
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 124
1 2 3 4 range
A 189.2
(3)
P 		72.5
(-3)
P 		75.1
(-2.9)
P 		74.8
(-2.9)
P 		117
B 167.2
(3)
P 		65.4
(-3)
P 		81.5
(-2.1)
P 		69.1
(-2.8)
P 		102
C 173
(3)
P 		96.2
(-2.8)
P 		116.6
(-1.2)
P 		92.9
(-3)
P 		80
avr 176.5
(3) 		78
(-3) 		91.1
(-2.2) 		78.9
(-2.9) 		99

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 186
1 2 3 4 5 6 range
A 67
(-0.4)
P 		110.8
(3)
P 		53.6
(-1.4)
P 		33.5
(-3)
P 		57.7
(-1.1)
P 		52.9
(-1.5)
P 		77
B 130.1
(3)
P 		95.7
(0.8)
P 		37
(-3)
P 		41.4
(-2.7)
P 		84.6
(0.1)
P 		81.7
(-0.1)
P 		93
C 219.8
(3)
P 		71
(-1.9)
P 		56.8
(-2.4)
P 		37.8
(-3)
P 		80
(-1.6)
P 		57.9
(-2.3)
P 		182
avr 139
(3) 		92.5
(0.2) 		49.1
(-2.3) 		37.6
(-3) 		74.1
(-0.8) 		64.2
(-1.4) 		101
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174015_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23386
Sequence Type Exemplar sequence
Representative Public ID AV186325 NCBI
Target Description AV186325 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=W02B12.9 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV186325 /WB_GENE_ID=W02B12.9 /WP=CE03769 /CHR=2 /FEA=Genomic Cluster /DEF=mitochondrial RNA splicing MSR4 like protein; Caenorhabditis elegans cDNA clone:yk498c1 : 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_064046(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064046 NCBI Caenorhabditis elegans W02B12.9 (W02B12.9) mRNA, complete cds. 11/11 None
W02B12.9 ENSEMBL cdna:known chromosome:CEL140:II:11469915:11471938:-1 gene:W02B12.9 11/11 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
chrII:11469993-11471914(-) 100.0 100.0
Public Domain and Genome References
Gene Title mitochondrial RNA splicing MSR4 like protein
Ensembl W02B12.9
Entrez Gene 174752 Entrez gene
SwissProt Q23125 EMBL-EBI
WormBase CE03769 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:267274_AT mitochondrial substrate carrier family protein at
CANINE:1585836_AT similar to mitochondrial solute carrier-like protein cfa
CANINE_2:CFA.7803.1.A1_AT similar to mitochondrial solute carrier-like protein cfa
CANINE_2:CFAAFFX.14394.1.S1_AT similar to mitochondrial solute carrier-like protein cfa
CANINE_2:CFAAFFX.14394.1.S1_S_AT similar to mitochondrial solute carrier-like protein cfa
DROSGENOME1:150759_AT dm
DROSOPHILA_2:1632963_AT dm
CHICKEN:GGA.12081.1.S1_S_AT solute carrier family 25, member 37 gga
CHICKEN:GGA.9566.2.S1_S_AT solute carrier family 25, member 37 gga
CHICKEN:GGA.9566.1.S1_AT Solute carrier family 25, member 37 gga
HG-U133_PLUS_2:226179_AT solute carrier family 25, member 37 hs
HG-U133B:226179_AT solute carrier family 25, member 37 hs
HG-U133_PLUS_2:242335_AT solute carrier family 25, member 37 hs
HG-U133B:242335_AT solute carrier family 25, member 37 hs
HG-U133_PLUS_2:218978_S_AT solute carrier family 25, member 37 hs
HG-U133A:218978_S_AT solute carrier family 25, member 37 hs
HG-U133A_2:218978_S_AT solute carrier family 25, member 37 hs
HU35KSUBA:RC_AA456584_AT solute carrier family 25, member 37 hs
HU35KSUBA:W26847_AT solute carrier family 25, member 37 hs
HU35KSUBA:RC_AA424146_AT solute carrier family 25, member 37 hs
HU35KSUBA:C02500_S_AT solute carrier family 25, member 37 hs
HU35KSUBA:AA316186_AT solute carrier family 25, member 37 hs
HU35KSUBB:RC_N58178_AT solute carrier family 25, member 37 hs
HG-U133A:218136_S_AT solute carrier family 25, member 37 hs
HG-U133_PLUS_2:218136_S_AT solute carrier family 25, member 37 hs
HG-U133A_2:218136_S_AT solute carrier family 25, member 37 hs
U133_X3P:G8924059_3P_A_AT solute carrier family 25, member 37 hs
U133_X3P:G8924027_3P_S_AT solute carrier family 25, member 37 hs
U133_X3P:G8924027_3P_A_AT solute carrier family 25, member 37 hs
U133_X3P:HS.33757.0.A1_3P_AT solute carrier family 25, member 37 hs
U133_X3P:HS.34549.0.A1_3P_AT solute carrier family 25, member 37 hs
U133_X3P:HS.300496.3.S1_3P_X_AT solute carrier family 25, member 37 hs
U133_X3P:HS.300496.3.S1_3P_A_AT solute carrier family 25, member 37 hs
U133_X3P:HS.300496.0.S1_3P_X_AT solute carrier family 25, member 37 hs
U133_X3P:HS.300496.0.S1_3P_AT solute carrier family 25, member 37 hs
U133_X3P:218978_3P_S_AT solute carrier family 25, member 37 hs
U133_X3P:221920_3P_S_AT solute carrier family 25, member 37 hs
HG-U133A_2:221920_S_AT solute carrier family 25, member 37 hs
HG-U133_PLUS_2:221920_S_AT solute carrier family 25, member 37 hs
HG-U133A:221920_S_AT solute carrier family 25, member 37 hs
HG-U133_PLUS_2:222528_S_AT solute carrier family 25, member 37 hs
HG-U133B:222528_S_AT solute carrier family 25, member 37 hs
HG-U133_PLUS_2:222529_AT solute carrier family 25, member 37 hs
HG-U133B:222529_AT solute carrier family 25, member 37 hs
HG-U95C:49811_S_AT solute carrier family 25, member 37 hs
HG-U95B:51242_AT solute carrier family 25, member 37 hs
HG-U95B:53389_AT solute carrier family 25, member 37 hs
HG-U95B:59105_AT solute carrier family 25, member 37 hs
HG-U95E:86820_AT solute carrier family 25, member 37 hs
HG-U133_PLUS_2:221155_X_AT Solute carrier family 25, member 37 hs
HG-U133A:221155_X_AT Solute carrier family 25, member 37 hs
HG-U133A_2:221155_X_AT Solute carrier family 25, member 37 hs
U133_X3P:G8924053_3P_X_AT Solute carrier family 25, member 37 hs
U133_X3P:221155_3P_X_AT Solute carrier family 25, member 37 hs
HG-U133_PLUS_2:226928_X_AT Solute carrier family 25, member 37 hs
HG-U133B:226928_X_AT Solute carrier family 25, member 37 hs
HG-U133_PLUS_2:228527_S_AT Solute carrier family 25, member 37 hs
HG-U133B:228527_S_AT Solute carrier family 25, member 37 hs
HG-U133_PLUS_2:231274_S_AT Solute carrier family 25, member 37 hs
HG-U133B:231274_S_AT Solute carrier family 25, member 37 hs
HG-U133_PLUS_2:237568_AT Solute carrier family 25, member 37 hs
HG-U133B:237568_AT Solute carrier family 25, member 37 hs
HG-U133_PLUS_2:237618_AT Solute carrier family 25, member 37 hs
HG-U133B:237618_AT Solute carrier family 25, member 37 hs
HG-U95B:58547_S_AT Solute carrier family 25, member 37 hs
HG-U95B:59122_AT Solute carrier family 25, member 37 hs
HG-U95E:73701_AT Solute carrier family 25, member 37 hs
HG-U95E:81006_AT Solute carrier family 25, member 37 hs
HU35KSUBA:AA453707_AT Solute carrier family 25, member 37 hs
HU35KSUBA:H56267_AT Solute carrier family 25, member 37 hs
HU35KSUBD:RC_AA465396_AT Solute carrier family 25, member 37 hs
HU35KSUBB:RC_T98549_AT Solute carrier family 25, member 37 hs
U133_X3P:HS.122514.0.A1_3P_AT Solute carrier family 25, member 37 hs
U133_X3P:HS.191196.0.A1_3P_AT Solute carrier family 25, member 37 hs
U133_X3P:HS.283716.2.A1_3P_S_AT Solute carrier family 25, member 37 hs
U133_X3P:HS.300496.2.A1_3P_A_AT Solute carrier family 25, member 37 hs
U133_X3P:HS.300496.3.A1_3P_A_AT Solute carrier family 25, member 37 hs
YEAST_2:1771744_AT Mitochondrial iron transporter of the mitochondrial carrier family (MCF), very similar to and functionally redundant with Mrs3p; functions under low-iron conditions; may transport other cations in addition to iron Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6810 transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5743 mitochondrial inner membrane inferred from electronic annotation QuickGO AmiGO
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5215 transporter activity inferred from electronic annotation QuickGO AmiGO
5488 binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA91399 Hypothetical protein W02B12.9 [Caenorhabditis elegans] ref|NP_496447.1| W02B12.9 [Caenorhabditis elegans] 1.0E-173
blast CAE59498 Hypothetical protein CBG02884 [Caenorhabditis briggsae] 1.0E-164
blast AAZ42345 mitochondrial carrier protein [Caenorhabditis remanei] 1.0E-116
Protein Domains
Database ID Description E-Value
Pfam IPR001993 EMBL-EBI Mitochondrial substrate carrier 3.7E-30
Pfam IPR001993 EMBL-EBI Mitochondrial substrate carrier 6.4E-21
Pfam IPR001993 EMBL-EBI Mitochondrial substrate carrier 1.5E-20
Sequence
Target Sequence 
>C. ELEGANS:174015_AT
ggtcattcgagttgataattttgatcttttctccaatttttcccccaatttttcctcttt
tccaaggtttctcctcatataggttaggttcaatagttctcatttctttttgttgttttt
ttttcatattactctcagttttctatgtttcttttttttacaaaacacgtgtcaaacccg
tgcagatgccttctagattctttttgttgtgttctgaaagttttatcgaatcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGTCATTCGAGTTGATAATTTTGAT 600 503 938 Antisense
TAATTTTGATCTTTTCTCCAATTTT 150 635 953 Antisense
TCTTTTCCAAGGTTTCTCCTCATAT 336 615 993 Antisense
GTTTCTCCTCATATAGGTTAGGTTC 164 447 1004 Antisense
TAGGTTCAATAGTTCTCATTTCTTT 473 653 1022 Antisense
TTTTCATATTACTCTCAGTTTTCTA 29 677 1058 Antisense
AAAACACGTGTCAAACCCGTGCAGA 581 129 1099 Antisense
TCAAACCCGTGCAGATGCCTTCTAG 379 629 1109 Antisense
GCAGATGCCTTCTAGATTCTTTTTG 246 313 1119 Antisense
AGATTCTTTTTGTTGTGTTCTGAAA 20 67 1132 Antisense
GTGTTCTGAAAGTTTTATCGAATCC 637 483 1146 Antisense
Sequence Source Affymetrix Proprietary Database