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[193110_at] mitochondrial carrier family

Description F49E8.5 /REP_DB=WormBase Gene ID /WP=CE28408 /GEN=dif-1 /TR=Q27257 /GB=AAB03153.2 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=mitochondrial carrier family
Cluster 6grp_highest_10_10 > 83      6grp_high1_10_10 > 38      4grp_highest_8_8 > 10      4grp_high_8_8 > 55      6grp_highest_nonorm > 57      6grp_total > 09      4grp_total > 56      6grp_highest_sub > Cu      6grp_cgc > 0      6grp_high1_sub > Cu      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1830
1 2 3 4 range
A 1539.7
(-3)
P 		2167.2
(-0.7)
P 		3172.6
(3)
P 		1593.7
(-2.8)
P 		1633
B 1519.8
(-2.3)
P 		2198.5
(0.5)
P 		2789.5
(3)
P 		1342.2
(-3)
P 		1447
C 1486.1
(-3)
P 		2143.6
(0.7)
P 		2548.8
(3)
P 		1550
(-2.6)
P 		1063
avr 1515.2
(-2.9) 		2169.8
(0) 		2837
(3) 		1495.3
(-3) 		1342

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1434
1 2 3 4 5 6 range
A 3146.1
(3)
P 		1938
(-3)
P 		2459.6
(-0.4)
P 		2756.9
(1.1)
P 		2107.4
(-2.2)
P 		2955.5
(2.1)
P 		1208
B 2896.2
(3)
P 		1711.8
(-3)
P 		2003.6
(-1.5)
P 		2575.2
(1.4)
P 		2456.4
(0.8)
P 		2718.8
(2.1)
P 		1184
C 2851.7
(3)
P 		1804.7
(-3)
P 		2691.6
(2.1)
P 		2583.4
(1.5)
P 		2263
(-0.4)
P 		2304.9
(-0.1)
P 		1047
avr 2964.7
(3) 		1818.2
(-3) 		2384.9
(-0) 		2638.5
(1.3) 		2275.6
(-0.6) 		2659.7
(1.4) 		1147
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 655
1 2 3 4 range
A 560.6
(0.3)
P 		470.4
(-0.6)
P 		829.4
(3)
P 		233.3
(-3)
P 		596
B 484.7
(0.3)
P 		543
(1.3)
P 		646.4
(3)
P 		286
(-3)
P 		360
C 491.9
(-0.8)
P 		616.3
(0.4)
P 		888.3
(3)
P 		261.3
(-3)
P 		627
avr 512.4
(-0.1) 		543.2
(0.2) 		788
(3) 		260.2
(-3) 		528

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 571
1 2 3 4 5 6 range
A 580
(-1.6)
P 		689.2
(2)
P 		535.6
(-3)
P 		699.2
(2.3)
P 		635.9
(0.3)
P 		719.6
(3)
P 		184
B 1007.7
(2.9)
P 		569.8
(-2.1)
P 		486.5
(-3)
P 		682.1
(-0.8)
P 		998
(2.8)
P 		1013.8
(3)
P 		527
C 1057
(3)
P 		550.7
(-2.7)
P 		685.1
(-1.2)
P 		519.5
(-3)
P 		732.3
(-0.6)
P 		771.6
(-0.2)
P 		538
avr 881.6
(3) 		603.2
(-2.3) 		569.1
(-3) 		633.6
(-1.8) 		788.7
(1.2) 		835
(2.1) 		313
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193110_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9117
Sequence Type Exemplar sequence
Representative Public ID F49E8.5 NCBI
Target Description F49E8.5 /REP_DB=WormBase Gene ID /WP=CE28408 /GEN=dif-1 /TR=Q27257 /GB=AAB03153.2 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=mitochondrial carrier family
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_068822(11), X76115(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068822 NCBI Caenorhabditis elegans DIFferentiation abnormal family member (dif-1) (dif-1) mRNA, complete cds. 11/11 A 
X76115 NCBI C.elegans mRNA for unknown ORF, 1076bp. 11/11 A 
SNAP00000021361 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7551722:7552848:-1 11/11 None
GENEFINDER00000021366 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7551722:7552848:-1 11/11 None
F49E8.5.1 ENSEMBL cdna:known chromosome:CEL140:IV:7551425:7552992:-1 gene:F49E8.5 11/11 None
F49E8.5.2 ENSEMBL cdna:known chromosome:CEL140:IV:7551534:7552858:-1 gene:F49E8.5 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:7551727-7552854(-) 100.0 100.0
Public Domain and Genome References
Gene Title mitochondrial carrier family
Gene Symbol dif-1
Ensembl F49E8.5
Entrez Gene 177530 Entrez gene
SwissProt Q27257 EMBL-EBI
WormBase CE28408 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:248838_AT mitochondrial carnitine/acyl carrier, putative / a bout de souffle (BOU) / CAC-like protein at
DROSOPHILA_2:1628991_AT congested-like trachea dm
DROSGENOME1:142499_AT congested-like trachea dm
CHICKEN:GGA.1685.1.S1_AT solute carrier family 25 (carnitine/acylcarnitine translocase), member 20 gga
HG-U133_PLUS_2:203658_AT solute carrier family 25 (carnitine/acylcarnitine translocase), member 20 hs
HG-U133A:203658_AT solute carrier family 25 (carnitine/acylcarnitine translocase), member 20 hs
HG-FOCUS:203658_AT solute carrier family 25 (carnitine/acylcarnitine translocase), member 20 hs
HG-U133A_2:203658_AT solute carrier family 25 (carnitine/acylcarnitine translocase), member 20 hs
U133_X3P:G12804552_3P_AT solute carrier family 25 (carnitine/acylcarnitine translocase), member 20 hs
HG-U95AV2:32376_AT solute carrier family 25 (carnitine/acylcarnitine translocase), member 20 hs
HG-U95E:91423_AT solute carrier family 25 (carnitine/acylcarnitine translocase), member 20 hs
MU11KSUBA:AA688902_AT solute carrier family 25 (mitochondrial carnitine/acylcarnitine translocase), member 20 mm
MU11KSUBA:AA688902_G_AT solute carrier family 25 (mitochondrial carnitine/acylcarnitine translocase), member 20 mm
MG-U74AV2:95695_AT solute carrier family 25 (mitochondrial carnitine/acylcarnitine translocase), member 20 mm
MOE430A:1423108_AT solute carrier family 25 (mitochondrial carnitine/acylcarnitine translocase), member 20 mm
MOUSE430A_2:1423108_AT solute carrier family 25 (mitochondrial carnitine/acylcarnitine translocase), member 20 mm
MOUSE430_2:1423108_AT solute carrier family 25 (mitochondrial carnitine/acylcarnitine translocase), member 20 mm
MOE430A:1423109_S_AT solute carrier family 25 (mitochondrial carnitine/acylcarnitine translocase), member 20 mm
MOUSE430A_2:1423109_S_AT solute carrier family 25 (mitochondrial carnitine/acylcarnitine translocase), member 20 mm
MOUSE430_2:1423109_S_AT solute carrier family 25 (mitochondrial carnitine/acylcarnitine translocase), member 20 mm
MU19KSUBB:TC33484_S_AT Solute carrier family 25 (mitochondrial carnitine/acylcarnitine translocase), member 20, mRNA (cDNA clone MGC:25786 IMAGE:4019406) mm
RG-U34A:RC_AA800120_AT solute carrier family 25 (carnitine/acylcarnitine translocase), member 20 rn
RG-U34C:RC_AI105089_AT solute carrier family 25 (carnitine/acylcarnitine translocase), member 20 rn
RAE230A:1398249_AT solute carrier family 25 (carnitine/acylcarnitine translocase), member 20 rn
RAT230_2:1398249_AT solute carrier family 25 (carnitine/acylcarnitine translocase), member 20 rn
YEAST_2:1774778_AT Mitochondrial inner membrane carnitine transporter, required for carnitine-dependent transport of acetyl-CoA from peroxisomes to mitochondria during fatty acid beta-oxidation 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 AAB03153 Differentiation abnormal protein 1 [Caenorhabditis elegans] ref|NP_501223.1| DIFferentiation abnormal family member (dif-1) [Caenorhabditis elegans] sp|Q27257|DIF1_CAEEL Protein dif-1 emb|CAA53721.1| carrier protein (c1) [Caenorhabditis elegans] emb|CAA88283.1| DIF-1 [Caenorhabditis elegans] 1.0E-180
blast CAE61912 Hypothetical protein CBG05908 [Caenorhabditis briggsae] 1.0E-175
Protein Domains
Database ID Description E-Value
Pfam IPR001993 EMBL-EBI Mitochondrial substrate carrier 7.1E-29
Pfam IPR001993 EMBL-EBI Mitochondrial substrate carrier 5.9E-34
Pfam IPR001993 EMBL-EBI Mitochondrial substrate carrier 2.0E-29
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501223.1 3 5-27,68-90,103-125
CAA53721.1 3 5-27,68-90,103-125
F49E8.5.1 3 5-27,68-90,103-125
F49E8.5.2 3 5-27,68-90,103-125
SNAP00000021361 3 5-27,68-90,103-125
GENEFINDER00000021366 3 5-27,68-90,103-125
Sequence
Target Sequence 
>C. ELEGANS:193110_AT
gaatcaagtgtcttcttcaagttcagcaagctggatctgctggttctggagttcattacg
atggtccacttgatgttgtcaaaaaactatataaacaaggaggaatttcatcaatctaca
gaggaactggtgccactctgctcagagacatcccagcttcagccgcttatctttcagtat
atgaatatctaaaaaagaaattctctggagaaggagctcaaagaacattgtcaccaggag
caacattgatggctggaggacttgctggtattgccaattggggagtgtgtattccagctg
atgttctcaaatctcgattacaaacagcccctg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATCAAGTGTCTTCTTCAAGTTCA 227 325 392 Antisense
TGGATCTGCTGGTTCTGGAGTTCAT 145 551 423 Antisense
TACGATGGTCCACTTGATGTTGTCA 705 647 448 Antisense
ATCTACAGAGGAACTGGTGCCACTC 208 33 505 Antisense
GGTGCCACTCTGCTCAGAGACATCC 6 501 520 Antisense
TTCAGCCGCTTATCTTTCAGTATAT 467 687 549 Antisense
GAACATTGTCACCAGGAGCAACATT 228 351 614 Antisense
GGAGGACTTGCTGGTATTGCCAATT 690 515 646 Antisense
GGGGAGTGTGTATTCCAGCTGATGT 180 497 671 Antisense
CCAGCTGATGTTCTCAAATCTCGAT 268 273 685 Antisense
AAATCTCGATTACAAACAGCCCCTG 147 117 700 Antisense
Sequence Source Affymetrix Proprietary Database