RetrogeneDB ID: | retro_btau_1365 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 4:113834903..113836199(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | BT.65379 | ||
| Ensembl ID: | ENSBTAG00000000492 | ||
| Aliases: | None | ||
| Description: | asparagine synthetase domain-containing protein 1 [Source:RefSeq peptide;Acc:NP_001029852] |
Retrocopy-Parental alignment summary:
>retro_btau_1365
GGGAATGATATCAGAGAATGTGTTAATAGCCTGACTGAGATTTCAGCAGACTTGCCAACATTTGTCTTGGTGGCAGCAAA
TGAAGCCAAACTGTATCTTAAAGAACCTGTTGTCCCTTTAAGTATGGCATTGCCACAAGCCGCATTTGAGACCCATTGCA
GCAGCATTTCCAGGAGGCCACTGACAAGAGACCCTTCAGGTCTTTCTTACTGATGGACACATGAAGGAAGTAGTTCAGCA
GTTCATTGGTGTCCTGAGTATCGCAGTCAAGAGACGTGTCTTGTGTTTACCTAGGGATGAAAACCTGACGCCAAGCGAAG
TTTTGAAAACTAGTAATAGGAAAGCAAATGTTGCAATTCTGTTTTCTGGAAGGATTGATTCCATGGTCATCACAGCCCTT
GCTGACCATCATATTCCTTTAGATGAACCAATTGATCTTCTCAATGTGGCTTTCATGACTAAAGAAATGACCATACCAGT
TAATTTTAACAAAAAAGAAAGAAAACAGAAAAATCATTGTGAAATACCCTCTGAAGAATTCTCCAAACGTGTTGCTGCTG
CTGCTAGCCCTGGTGAACAGTTCAATGCACCAGATCGAGTCACAGGAAGAGCGGGACTGAAGGAACTGCAAGCTGCCAAC
CCTAACAGATTTGAAATTTTGTTGAAATTAATGTTTCTCTAGAAGAACTGCAAAGATTAAGAATAACTCGAATATCGCAC
TTAATCTAGCCCTTGGATACAGTCCTGGATGATAGCATTGGCTGTGCAGTCTGGTTTGCTTCCAGAGGAGCTGGTTGGTT
AGTGACCCAAGATGGAGCAAAACTGTATCAGAGCAGTGCAAAGGTAGTTCTTACTGGAATTGGTGCAGATGAGCAGCTTG
CAGGTTATTCTTGTCATCATGTCTGCTTCCTGACACATTGGCTGGAAGGACTGAATAAGGAAATTGAAATGAAACTGGGT
TGAATTTCTTCTAGAAATCTTGGTCATGATGATAGAGGTATCAGTGATCACGGAAAAGAAGCAAGATTTTCTTTCCTGGA
TGAAAATGTTGTCTCCTTTCTAAATTCCCTACCAGTCTGGGAAAAGGCAAACTTGACTTTACCCTGTGGGATTGGTGAAA
AACTAATTTTGCGTCTTGCAGCAGTGGAACTTGGTCAAACAGCCTCTGTTCTTCTGCCAAAGTGGGCCATGCAATTTGGA
TCCAGAATTGCAAAAATGGAAAACAATAATGAAAACGCATATGATAAATGTGGAAGGCTCCAAATAATCTCGTTAGAAAA
CCTTTCAGTTGAAAAC
ORF - retro_btau_1365 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 86.1 % |
| Parental protein coverage: | 68.12 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | GDDIRECVHNSLTEISADLPTLVLVAANEAKLYLKDPVVPLNMALPQAAFETHCSSISRSPLTRE-TLRV |
| G.DIRECV.NSLTEISADLPT.VLVAANEAKLYLK.PVVPL.MALPQAAFETHCSSISR.PLTR....R. | |
| Retrocopy | GNDIRECV-NSLTEISADLPTFVLVAANEAKLYLKEPVVPLSMALPQAAFETHCSSISRRPLTRD<PFRS |
| Parental | FL-TDGHTKEVVQQFIGVLSTAVKRRVLCLPRDENLAPSKVLKTSNGKANVAVLFSGGIDSMVIAALADH |
| FL.TDGH.KEVVQQFIGVLS.AVKRRVLCLPRDENL.PS.VLKTSN.KANVA.LFSG.IDSMVI.ALADH | |
| Retrocopy | FL<TDGHMKEVVQQFIGVLSIAVKRRVLCLPRDENLTPSEVLKTSNRKANVAILFSGRIDSMVITALADH |
| Parental | HIPLDEPIDLLNVAFMTKEKTIPVNFNKKGRKQANHCEMPSEEFSKRAAATAAASPGEQLSVPDRVTGRA |
| HIPLDEPIDLLNVAFMTKE.TIPVNFN........HCE.PSEEFSKR.A..AAASPGEQ...PDRVTGRA | |
| Retrocopy | HIPLDEPIDLLNVAFMTKEMTIPVNFNXXXXXXXXHCEIPSEEFSKRVA--AAASPGEQFNAPDRVTGRA |
| Parental | GLKELQAANPSR-IWNFVEINVSLEELQRLRRTRISHLIQPLDTVLDDSIGCAVWFASRGAGWLVTQDGA |
| GLKELQAANP.R.I.NFVEINVSLEELQRLR.TRISHLI.PLDTVLDDSIGCAVWFASRGAGWLVTQDGA | |
| Retrocopy | GLKELQAANPNR<I*NFVEINVSLEELQRLRITRISHLI*PLDTVLDDSIGCAVWFASRGAGWLVTQDGA |
| Parental | QPYQSSAKVVLTGIGADEQLAGYSRHRVRFLAHGLEGLNKEIEMELGRISSRNLGRDDRVISDHGKEARF |
| ..YQSSAKVVLTGIGADEQLAGYS.H.V.FL.H.LEGLNKEIEM.LG.ISSRNLG.DDR.ISDHGKEARF | |
| Retrocopy | KLYQSSAKVVLTGIGADEQLAGYSCHHVCFLTHWLEGLNKEIEMKLG*ISSRNLGHDDRGISDHGKEARF |
| Parental | PFLDENVVSFLNSLPVWEKANLTLPRGIGEKLILRLAAVELGLTASALLPKRALQFGSRIAKMEKNNEKA |
| .FLDENVVSFLNSLPVWEKANLTLP.GIGEKLILRLAAVELG.TAS.LLPK.A.QFGSRIAKME.NNE.A | |
| Retrocopy | SFLDENVVSFLNSLPVWEKANLTLPCGIGEKLILRLAAVELGQTASVLLPKWAMQFGSRIAKMENNNENA |
| Parental | SDKCGRLQIISLENLSVEN |
| .DKCGRLQIISLENLSVEN | |
| Retrocopy | YDKCGRLQIISLENLSVEN |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| ERP005899_liver | 0 .00 RPM | 26 .46 RPM |
| ERP005899_muscle | 0 .00 RPM | 50 .36 RPM |
| SRP017611_brain | 0 .00 RPM | 32 .66 RPM |
| SRP017611_kidney | 0 .00 RPM | 43 .45 RPM |
| SRP017611_liver | 0 .00 RPM | 26 .28 RPM |
| SRP030211_testis | 0 .01 RPM | 21 .52 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1365 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1365 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_1365 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000000492 | 1 retrocopy |
retro_btau_1365 ,
|
| Oryctolagus cuniculus | ENSOCUG00000012468 | 1 retrocopy |