RetrogeneDB ID: | retro_sscr_549 | ||
Retrocopylocation | Organism: | Pig (Sus scrofa) | |
Coordinates: | 16:46545957..46547216(-) | ||
Located in intron of: | ENSSSCG00000029340 | ||
Retrocopyinformation | Ensembl ID: | None | |
Aliases: | None | ||
Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | IDH1 | ||
Ensembl ID: | ENSSSCG00000023264 | ||
Aliases: | None | ||
Description: | isocitrate dehydrogenase 1 (NADP+), soluble [Source:HGNC Symbol;Acc:5382] |
Percent Identity: | 86.22 % |
Parental protein coverage: | 98.13 % |
Number of stop codons detected: | 3 |
Number of frameshifts detected | 1 |
Parental | RFIKAKMSQKIQGGSVVEMQGDEMTRIIWELIKEKLIFPYVELDLH-SYDLGIENRDATNDQVTKDAAEA |
R.IK.KMSQ.IQGGSVVEMQ.DEMTRIIWELIKEKLIFPY.ELDL..SYDL.IENRDATNDQVTKDAAEA | |
Retrocopy | RSIKVKMSQEIQGGSVVEMQKDEMTRIIWELIKEKLIFPYMELDLQ<SYDLSIENRDATNDQVTKDAAEA |
Parental | IKKYNVGVKCATITPDEKRVEEFKLKQMWKSPNGTIRNILGGTVFREAIICKNIPRLVSGWVKPIIIGRH |
.KKY..GVKCATITP.EKRVEEFKLKQMWK..NGTI.NILGGTVF.EAIICKNIP.LVSGWVKPIIIG.H | |
Retrocopy | VKKYSAGVKCATITPNEKRVEEFKLKQMWKLQNGTI*NILGGTVFWEAIICKNIPWLVSGWVKPIIIGHH |
Parental | AYGDQYRATDFVVPGPGKVEISYTPRDGSPKMTYMVHDFTDCGGVAMGMYNQDKSIEDFAHSSFQMALSK |
AY.DQYRAT.FV.PGPGKVEISYTP..GSPKMTY.VHDFTDC.GV.M.MYNQDKS.EDFA.SSFQM.LSK | |
Retrocopy | AYRDQYRATHFVAPGPGKVEISYTPSNGSPKMTYVVHDFTDCCGVVMWMYNQDKSVEDFAYSSFQMDLSK |
Parental | GWPLYLSTKNTILKKYDGRFKDIFQEIYDKQYKSQFEAQKIWYEHRLIDDMVAQAMKSEGGFIWACKNYD |
.WPLYLSTKNTILKKYDG.FKDIFQEIYDKQ.KSQFEAQKI.Y.HRLID.MVAQA.KSEG.FIW.CKNYD | |
Retrocopy | SWPLYLSTKNTILKKYDGHFKDIFQEIYDKQ*KSQFEAQKI*YGHRLIDYMVAQATKSEGSFIWTCKNYD |
Parental | GDVQSDSVAQGYGSLGMMTSVLICPDGKTVEAEAAHGTVTRHYRMYQKGQETSTNPIASIFAWTRGLAHR |
G.VQSDS.AQGYGSLGMMTSVL.CPDG.TVEAEAAH.TVTRHY.MYQKGQE.STN.IAS.FAWTRGLAHR | |
Retrocopy | GKVQSDSMAQGYGSLGMMTSVLVCPDGRTVEAEAAHETVTRHYHMYQKGQEMSTNAIASSFAWTRGLAHR |
Parental | AKLDSNKELSIFANALEEVCIETIEAGFMTKDLAACIKGLPNVQRSDYLNTFEFMDKLGENLKIKLAQAK |
A..D.NKELSIFA.AL.EVCIET.EAGFMTKDLAAC.KGLPNVQ.SDYL.TFEFMDKL.ENLKIKLAQAK | |
Retrocopy | ANSDNNKELSIFAKALKEVCIETVEAGFMTKDLAACVKGLPNVQHSDYLDTFEFMDKLRENLKIKLAQAK |
Parental | L |
L | |
Retrocopy | L |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP014902_placenta | 0 .00 RPM | 24 .56 RPM |
SRP014902_testis | 0 .57 RPM | 87 .56 RPM |
SRP018288_heart | 0 .10 RPM | 34 .21 RPM |
SRP018288_kidney | 0 .10 RPM | 253 .45 RPM |
SRP018288_liver | 0 .16 RPM | 405 .53 RPM |
SRP018288_lung | 0 .10 RPM | 63 .64 RPM |
SRP018856_adipose | 0 .03 RPM | 433 .37 RPM |
SRP035408_brain | 0 .19 RPM | 55 .36 RPM |
SRP035408_liver | 0 .21 RPM | 511 .70 RPM |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Bos taurus | ENSBTAG00000020527 | 1 retrocopy | |
Choloepus hoffmanni | ENSCHOG00000004574 | 2 retrocopies | |
Cavia porcellus | ENSCPOG00000013587 | 1 retrocopy | |
Homo sapiens | ENSG00000138413 | 1 retrocopy | |
Gorilla gorilla | ENSGGOG00000012619 | 1 retrocopy | |
Microcebus murinus | ENSMICG00000009797 | 1 retrocopy | |
Macaca mulatta | ENSMMUG00000016077 | 1 retrocopy | |
Nomascus leucogenys | ENSNLEG00000007143 | 3 retrocopies | |
Otolemur garnettii | ENSOGAG00000014848 | 4 retrocopies | |
Pongo abelii | ENSPPYG00000013125 | 2 retrocopies | |
Pan troglodytes | ENSPTRG00000012865 | 1 retrocopy | |
Sus scrofa | ENSSSCG00000023264 | 1 retrocopy |
retro_sscr_549 ,
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