Prediction |
disease causing |
Model: simple_aae, prob: 0.999999938916336 (classification due to ClinVar,
real probability is shown anyway)
(explain) |
| Summary |
- amino acid sequence changed
- known disease mutation at this position (HGMD CM063821)
- known disease mutation: rs5355 (pathogenic)
- protein features (might be) affected
- splice site changes
|
hyperlink |
| analysed issue |
analysis result |
| name of alteration | no title |
| alteration (phys. location) | chr11:134128483T>CN/A
show variant in all transcripts IGV
|
| HGNC symbol | ACAD8 |
| Ensembl transcript ID | ENST00000281182 |
| Genbank transcript ID | NM_014384 |
| UniProt peptide | Q9UKU7 |
| alteration type | single base exchange |
| alteration region | CDS |
| DNA changes | c.455T>C
cDNA.561T>C
g.5095T>C |
| AA changes | M152T Score: 81 explain score(s) |
position(s) of altered AA
if AA alteration in CDS | 152 |
| frameshift | no |
| known variant | Reference ID: rs121908418
| database | homozygous (C/C) | heterozygous | allele carriers |
| 1000G | - | - | - |
| ExAC | 0 | 9 | 9 |
known disease mutation: rs5355 (pathogenic for Deficiency of isobutyryl-CoA dehydrogenase) dbSNP
NCBI variation viewer
known disease mutation at this position, please check HGMD for details (HGMD ID CM063821)
known disease mutation at this position, please check HGMD for details (HGMD ID CM063821)
known disease mutation at this position, please check HGMD for details (HGMD ID CM063821)
|
| regulatory features | H3K36me3, Histone, Histone 3 Lysine 36 Tri-Methylation |
| phyloP / phastCons | | PhyloP | PhastCons |
| (flanking) | 5.049 | 1 | | 5.049 | 1 | | (flanking) | 6.115 | 1 |
explain score(s) and/or inspect your position(s) in in UCSC Genome Browser |
| splice sites | | effect | gDNA position | score | wt detection sequence | exon-intron border | | Acc increased | 5090 | wt: 0.41 / mu: 0.47 | wt: AAATTTTGCCCACCGCTCTGTACCATGGAGAAGTTTGCTTC
mu: AAATTTTGCCCACCGCTCTGTACCACGGAGAAGTTTGCTTC | ctgt|ACCA | | Acc marginally increased | 5088 | wt: 0.4865 / mu: 0.5123 (marginal change - not scored) | wt: ACAAATTTTGCCCACCGCTCTGTACCATGGAGAAGTTTGCT
mu: ACAAATTTTGCCCACCGCTCTGTACCACGGAGAAGTTTGCT | ctct|GTAC | | Acc increased | 5087 | wt: 0.32 / mu: 0.47 | wt: CACAAATTTTGCCCACCGCTCTGTACCATGGAGAAGTTTGC
mu: CACAAATTTTGCCCACCGCTCTGTACCACGGAGAAGTTTGC | gctc|TGTA | | Donor marginally increased | 5096 | wt: 0.9969 / mu: 0.9982 (marginal change - not scored) | wt: ACCATGGAGAAGTTT
mu: ACCACGGAGAAGTTT | CATG|gaga |
|
| distance from splice site | 36 |
| Kozak consensus sequence altered? | N/A |
conservation
protein level for non-synonymous changes | | species | match | gene | aa | alignment | | Human | | | 152 | Q | R | H | K | F | C | P | P | L | C | T | M | E | K | F | A | S | Y | C | L | T | E | P | G |
| mutated | not conserved | | 152 | Q | R | H | K | F | C | P | P | L | C | T | T | E | K | F | A | S | Y | C | L | T | E | P |
| Ptroglodytes | all identical | ENSPTRG00000004496 | 152 | Q | R | H | K | F | C | P | P | L | C | T | M | E | K | F | A | S | Y | C | L | T | E | P |
| Mmulatta | all identical | ENSMMUG00000007107 | 152 | Q | R | H | K | F | C | P | P | L | C | T | M | E | K | F | A | S | Y | C | L | T | E | P |
| Fcatus | no homologue | | | |
| Mmusculus | all identical | ENSMUSG00000031969 | 150 | Q | R | H | K | F | C | P | P | L | C | T | M | E | K | F | A | S | Y | C | L | T | E | P |
| Ggallus | all identical | ENSGALG00000001557 | 149 | | | | | | | | | L | C | S | M | E | K | F | A | S | Y | C | L | T | E | P |
| Trubripes | no homologue | | | |
| Drerio | all identical | ENSDARG00000042658 | 154 | | | | | | | | | L | C | S | M | Q | K | F | A | S | Y | C | L | T | E | P |
| Dmelanogaster | no homologue | | | |
| Celegans | not conserved | F28A10.6 | 138 | L | K | E | D | L | L | P | D | M | A | V | F | K | K | L | G | S | Y | C | L | T | E | P |
| Xtropicalis | all identical | ENSXETG00000008327 | 151 | | | | | | | | | L | C | S | M | D | K | F | A | S | Y | C | L | T | E | P |
|
| protein features | | start (aa) | end (aa) | feature | details | | | 139 | 150 | HELIX | | might get lost (downstream of altered splice site) | | 156 | 159 | STRAND | | might get lost (downstream of altered splice site) | | 158 | 167 | NP_BIND | FAD. | might get lost (downstream of altered splice site) | | 165 | 168 | STRAND | | might get lost (downstream of altered splice site) | | 167 | 167 | BINDING | Substrate; via carbonyl oxygen. | might get lost (downstream of altered splice site) | | 169 | 171 | HELIX | | might get lost (downstream of altered splice site) | | 175 | 179 | STRAND | | might get lost (downstream of altered splice site) | | 182 | 193 | STRAND | | might get lost (downstream of altered splice site) | | 191 | 193 | NP_BIND | FAD. | might get lost (downstream of altered splice site) | | 194 | 197 | TURN | | might get lost (downstream of altered splice site) | | 199 | 211 | STRAND | | might get lost (downstream of altered splice site) | | 210 | 210 | CONFLICT | P -> L (in Ref. 4; AAH01964). | might get lost (downstream of altered splice site) | | 212 | 214 | HELIX | | might get lost (downstream of altered splice site) | | 215 | 221 | STRAND | | might get lost (downstream of altered splice site) | | 227 | 229 | STRAND | | might get lost (downstream of altered splice site) | | 235 | 237 | STRAND | | might get lost (downstream of altered splice site) | | 243 | 254 | STRAND | | might get lost (downstream of altered splice site) | | 255 | 257 | HELIX | | might get lost (downstream of altered splice site) | | 258 | 261 | STRAND | | might get lost (downstream of altered splice site) | | 265 | 301 | HELIX | | might get lost (downstream of altered splice site) | | 274 | 277 | REGION | Substrate binding. | might get lost (downstream of altered splice site) | | 302 | 302 | BINDING | FAD; shared with dimeric partner. | might get lost (downstream of altered splice site) | | 309 | 311 | HELIX | | might get lost (downstream of altered splice site) | | 312 | 313 | NP_BIND | FAD; shared with dimeric partner. | might get lost (downstream of altered splice site) | | 313 | 341 | HELIX | | might get lost (downstream of altered splice site) | | 347 | 372 | HELIX | | might get lost (downstream of altered splice site) | | 371 | 375 | NP_BIND | FAD; shared with dimeric partner. | might get lost (downstream of altered splice site) | | 373 | 378 | HELIX | | might get lost (downstream of altered splice site) | | 384 | 393 | HELIX | | might get lost (downstream of altered splice site) | | 394 | 396 | TURN | | might get lost (downstream of altered splice site) | | 397 | 399 | STRAND | | might get lost (downstream of altered splice site) | | 398 | 398 | ACT_SITE | Proton acceptor. | might get lost (downstream of altered splice site) | | 399 | 399 | BINDING | Substrate; via amide nitrogen. | might get lost (downstream of altered splice site) | | 400 | 402 | NP_BIND | FAD. | might get lost (downstream of altered splice site) | | 401 | 414 | HELIX | | might get lost (downstream of altered splice site) | | 410 | 410 | BINDING | Substrate. | might get lost (downstream of altered splice site) |
|
| length of protein | normal |
| AA sequence altered | yes |
| position of stopcodon in wt / mu CDS | 1248 / 1248 |
| position (AA) of stopcodon in wt / mu AA sequence | 416 / 416 |
| position of stopcodon in wt / mu cDNA | 1354 / 1354 |
| 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 | 107 / 107 |
| chromosome | 11 |
| strand | 1 |
| last intron/exon boundary | 1302 |
| theoretical NMD boundary in CDS | 1145 |
| length of CDS | 1248 |
| coding sequence (CDS) position | 455 |
cDNA position
(for ins/del: last normal base / first normal base) | 561 |
gDNA position
(for ins/del: last normal base / first normal base) | 5095 |
chromosomal position
(for ins/del: last normal base / first normal base) | 134128483 |
| original gDNA sequence snippet | TTGCCCACCGCTCTGTACCATGGAGAAGTTTGCTTCCTACT |
| altered gDNA sequence snippet | TTGCCCACCGCTCTGTACCACGGAGAAGTTTGCTTCCTACT |
| original cDNA sequence snippet | TTGCCCACCGCTCTGTACCATGGAGAAGTTTGCTTCCTACT |
| altered cDNA sequence snippet | TTGCCCACCGCTCTGTACCACGGAGAAGTTTGCTTCCTACT |
| wildtype AA sequence | MLWSGCRRFG ARLGCLPGGL RVLVQTGHRS LTSCIDPSMG LNEEQKEFQK VAFDFAAREM
APNMAEWDQK ELFPVDVMRK AAQLGFGGVY IQTDVGGSGL SRLDTSVIFE ALATGCTSTT
AYISIHNMCA WMIDSFGNEE QRHKFCPPLC TMEKFASYCL TEPGSGSDAA SLLTSAKKQG
DHYILNGSKA FISGAGESDI YVVMCRTGGP GPKGISCIVV EKGTPGLSFG KKEKKVGWNS
QPTRAVIFED CAVPVANRIG SEGQGFLIAV RGLNGGRINI ASCSLGAAHA SVILTRDHLN
VRKQFGEPLA SNQYLQFTLA DMATRLVAAR LMVRNAAVAL QEERKDAVAL CSMAKLFATD
ECFAICNQAL QMHGGYGYLK DYAVQQYVRD SRVHQILEGS NEVMRILISR SLLQE* |
| mutated AA sequence | MLWSGCRRFG ARLGCLPGGL RVLVQTGHRS LTSCIDPSMG LNEEQKEFQK VAFDFAAREM
APNMAEWDQK ELFPVDVMRK AAQLGFGGVY IQTDVGGSGL SRLDTSVIFE ALATGCTSTT
AYISIHNMCA WMIDSFGNEE QRHKFCPPLC TTEKFASYCL TEPGSGSDAA SLLTSAKKQG
DHYILNGSKA FISGAGESDI YVVMCRTGGP GPKGISCIVV EKGTPGLSFG KKEKKVGWNS
QPTRAVIFED CAVPVANRIG SEGQGFLIAV RGLNGGRINI ASCSLGAAHA SVILTRDHLN
VRKQFGEPLA SNQYLQFTLA DMATRLVAAR LMVRNAAVAL QEERKDAVAL CSMAKLFATD
ECFAICNQAL QMHGGYGYLK DYAVQQYVRD SRVHQILEGS NEVMRILISR SLLQE* |
| speed | 0.73 s |
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