Yum, tasty mutations...

mutation t@sting

 documentation

Prediction

polymorphism

 Model: simple_aae, prob: 0.999181139027042 (classification due to TGP/ExAC, real probability is shown anyway)      (explain)
Summary
  • amino acid sequence changed
  • homozygous in TGP or ExAC
  • protein features (might be) affected
  • splice site changes
 hyperlink
analysed issue analysis result
name of alteration no title
alteration (phys. location) chr6:53883843G>AN/A show variant in all transcripts   IGV
HGNC symbol MLIP
Ensembl transcript ID ENST00000514921
Genbank transcript ID N/A
UniProt peptide Q5VWP3
alteration type single base exchange
alteration region CDS
DNA changes c.17G>A
cDNA.130G>A
g.89064G>A
AA changes R6H Score: 29 explain score(s)
position(s) of altered AA
if AA alteration in CDS		 6
frameshift no
known variant Reference ID: rs17625497
databasehomozygous (A/A)heterozygousallele carriers
1000G131725856
ExAC42412202226263
regulatory features DNase1, Open Chromatin, DNase1 Hypersensitive Site
phyloP / phastCons
PhyloPPhastCons
(flanking)1.8361
1.3211
(flanking)1.311
explain score(s) and/or inspect your position(s) in in UCSC Genome Browser
splice sites
effectgDNA positionscorewt detection sequence exon-intron border
Donor increased89065wt: 0.84 / mu: 0.95wt: AAGCGTGAAAAAAGA
mu: AAGCATGAAAAAAGA		 GCGT|gaaa
Donor marginally increased89067wt: 0.9668 / mu: 0.9820 (marginal change - not scored)wt: GCGTGAAAAAAGAAG
mu: GCATGAAAAAAGAAG		 GTGA|aaaa
Donor marginally increased89056wt: 0.9952 / mu: 0.9953 (marginal change - not scored)wt: GAACTTGAAAAGCGT
mu: GAACTTGAAAAGCAT		 ACTT|gaaa
distance from splice site 47
Kozak consensus sequence altered? N/A
conservation
protein level for non-synonymous changes
speciesmatchgeneaaalignment
Human      6 MELEKREKRSLLNKNLEE
mutated  not conserved    6 MELEKHEKRSLLNKNLEEKLTV
Ptroglodytes  all identical  ENSPTRG00000018294  6 MELEKREKRSLLNKNLEEKLMV
Mmulatta  not conserved  ENSMMUG00000012781  6 MELEKHEKRSLLNKNLEEKLTV
Fcatus  no homologue    
Mmusculus  no alignment  ENSMUSG00000032355  n/a
Ggallus  no homologue    
Trubripes  no homologue    
Drerio  no alignment  ENSDARG00000089920  n/a
Dmelanogaster  no homologue    
Celegans  no homologue    
Xtropicalis  no homologue    
protein features
start (aa)end (aa)featuredetails 
140REGIONInteraction with LMNA.lost
355355CONFLICTN -> T (in Ref. 3; AAH09010).might get lost (downstream of altered splice site)
length of protein normal
AA sequence altered yes
position of stopcodon in wt / mu CDS 2748 / 2748
position (AA) of stopcodon in wt / mu AA sequence 916 / 916
position of stopcodon in wt / mu cDNA 2861 / 2861
poly(A) signal N/A
conservation
nucleotide level for all changes - no scoring up to now		 N/A
position of start ATG in wt / mu cDNA 114 / 114
chromosome 6
strand 1
last intron/exon boundary 2799
theoretical NMD boundary in CDS 2635
length of CDS 2748
coding sequence (CDS) position 17
cDNA position
(for ins/del: last normal base / first normal base)		 130
gDNA position
(for ins/del: last normal base / first normal base)		 89064
chromosomal position
(for ins/del: last normal base / first normal base)		 53883843
original gDNA sequence snippet CAATATGGAACTTGAAAAGCGTGAAAAAAGAAGCTTATTAA
altered gDNA sequence snippet CAATATGGAACTTGAAAAGCATGAAAAAAGAAGCTTATTAA
original cDNA sequence snippet CAATATGGAACTTGAAAAGCGTGAAAAAAGAAGCTTATTAA
altered cDNA sequence snippet CAATATGGAACTTGAAAAGCATGAAAAAAGAAGCTTATTAA
wildtype AA sequence MELEKREKRS LLNKNLEEKL TVSAGGSEAK PLIFTFVPTV RRLPTHTQLA DTSKFLVKIP
EESSDKSPET VNRSKSNDYL TLNAGSQQER DQAKLTCPSE VSGTILQERE FEANKLQGMQ
QSDLFKAEYV LIVDSEGEDE AASRKVEQGP PGGIGTAAVR PKSLAISSSL VSDVVRPKTQ
GTDLKTSSHP EMLHGMAPQQ KHGQLTSSPT TSEQLACKPP AFSFVSPTNP NTPPDPVNLE
GASVLEEFHT RRLDVGGAVV EESATYFQTT AHSTPFSASK GTSSTLLFPH STQLSGSNLP
SSTAADPKPG LTSEVLKKTT LTSHVLSHGE SPRTSSSPPS SSASLKSNSA SYIPVRIVTH
SLSPSPKPFT SSFHGSSSTI CSQMSSSGNL SKSGVKSPVP SRLALLTAIL KSNPSHQRPF
SPASCPTFSL NSPASSTLTL DQKEKQTPPT PKKSLSSCSL RAGSPDQGEL QVSELTQQSF
HLPVFTKSTP LSQAPSLSPT KQASSSLASM NVERTPSPTL KSNTMLSLLQ TSTSSSVGLP
PVPPSSSLSS LKSKQDGDLR GPENPRNIHT YPSTLASSAL SSLSPPINQR ATFSSSEKCF
HPSPALSSLI NRSKRASSQL SGQELNPSAL PSLPVSSADF ASLPNLRSSS LPHANLPTLV
PQLSPSALHP HCGSGTLPSR LGKSESTTPN HRSPVSTPSL PISLTRTEEL ISPCALSMST
GPENKKSKQY KTKSSYKAFA AIPTNTLLLE QKALDEPAKT ESVSKDNTLE PPVELYFPAQ
LRQQTEELCA TIDKVLQDSL SMHSSDSPSR SPKTLLGSDT VKTPTTLPRA AGRETKYANL
SSPSSTVSES QLTKPGVIRP VPVKSRILLK KEEEVYEPNP FSKYLEDNSD LFSEQAAHSV
DSYCNGSDTS GPWLL*
mutated AA sequence MELEKHEKRS LLNKNLEEKL TVSAGGSEAK PLIFTFVPTV RRLPTHTQLA DTSKFLVKIP
EESSDKSPET VNRSKSNDYL TLNAGSQQER DQAKLTCPSE VSGTILQERE FEANKLQGMQ
QSDLFKAEYV LIVDSEGEDE AASRKVEQGP PGGIGTAAVR PKSLAISSSL VSDVVRPKTQ
GTDLKTSSHP EMLHGMAPQQ KHGQLTSSPT TSEQLACKPP AFSFVSPTNP NTPPDPVNLE
GASVLEEFHT RRLDVGGAVV EESATYFQTT AHSTPFSASK GTSSTLLFPH STQLSGSNLP
SSTAADPKPG LTSEVLKKTT LTSHVLSHGE SPRTSSSPPS SSASLKSNSA SYIPVRIVTH
SLSPSPKPFT SSFHGSSSTI CSQMSSSGNL SKSGVKSPVP SRLALLTAIL KSNPSHQRPF
SPASCPTFSL NSPASSTLTL DQKEKQTPPT PKKSLSSCSL RAGSPDQGEL QVSELTQQSF
HLPVFTKSTP LSQAPSLSPT KQASSSLASM NVERTPSPTL KSNTMLSLLQ TSTSSSVGLP
PVPPSSSLSS LKSKQDGDLR GPENPRNIHT YPSTLASSAL SSLSPPINQR ATFSSSEKCF
HPSPALSSLI NRSKRASSQL SGQELNPSAL PSLPVSSADF ASLPNLRSSS LPHANLPTLV
PQLSPSALHP HCGSGTLPSR LGKSESTTPN HRSPVSTPSL PISLTRTEEL ISPCALSMST
GPENKKSKQY KTKSSYKAFA AIPTNTLLLE QKALDEPAKT ESVSKDNTLE PPVELYFPAQ
LRQQTEELCA TIDKVLQDSL SMHSSDSPSR SPKTLLGSDT VKTPTTLPRA AGRETKYANL
SSPSSTVSES QLTKPGVIRP VPVKSRILLK KEEEVYEPNP FSKYLEDNSD LFSEQAAHSV
DSYCNGSDTS GPWLL*
speed 1.44 s
All positions are in basepairs (bp) if not explicitly stated differently.
AA/aa: amino acid; CDS: coding sequence; mu: mutated; NMD: nonsense-mediated mRNA decay; nt: nucleotide; wt: wildtype; TGP: 1000 Genomes Project