RetrogeneDB ID: | retro_mmus_382 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 1:161746341..161747645(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Gpt | ||
| Ensembl ID: | ENSMUSG00000022546 | ||
| Aliases: | Gpt, 1300007J06Rik, 2310022B03Rik, ALT, Gpt-1, Gpt1 | ||
| Description: | glutamic pyruvic transaminase, soluble [Source:MGI Symbol;Acc:MGI:95802] |
Retrocopy-Parental alignment summary:
>retro_mmus_382
ACTGAGGTAATCCGAGCCAACATTGGGGATGCCCATGCTATGGGCCAGCAGCCAATCACCTTCCTCCATCAGGTGATGGC
ACTCTGCACTTTCCCAAACCTGCTAAACAGCCCCAGCTTCCCAGAAGATGCTAAGAAAGGAGCCGGGCGGATCCTGCAGG
CTTGTGGTGGAAACAGCTTGGGATTTTACAGTGCTAGCCAGGGCTTTAACTGTACCTGTGAGGATATGGCAGCCTTTATC
ACCGGGAGAGATGGTGTGCCTGCAGACCCAGACAACATTTACCTGACTACTGGAGCTAGCGACGGTATTTCTACGATCCT
AAAGCTCCTGGTCTCCGGTGCTGGCAAGTCACGGACAGGCGAGATGATTCCCATCCCACAGTACCCCTTGTACTCTGCGG
TCATCTCCGAGCTCAACGCGGTTCAGGTGAACTACATTCTGGATGAGAACTGCTGGGCTTTAAATGTGGACGAGCTCCGG
CGGGCATTGCGGCAAGCCAAAGATCACTAAAGTGGCCCTAAAGTTCTCTTGCATTATCAACCCTGGAAACCCCACGAGCC
AGGTACAAAGCAGAAAGTGCAGAGAAGATGTGATTTGCTTTGCCTGAAAAGAGAAGCTTTTTCTCCTGGCTGATGAGCTA
TACCAGGACAACGTGTGCTCTCCAGACTGCAGATTCCACTCGTTTAAGAAAGTGCTTTACCAGATAGATGGGGCATGAGT
ACTCCAGCAATGTGGAGCTCGCCTCCTTCCACTCCACCTCCAAGGGCTACGTGGGCAAGTGTGACTACAGAGGGGGCTAC
ATGGAGGTGATCAGTTTGCACCCTGAGATCGAAGGCCAGCTGGTGAAGCTACTCTCCATTCGCCTCTGTCCGCCCGTGTC
TGGACAGGTCGCTATGGACATTGTTGTGAATCCACCAGTACCAGGAGAGGAGTCCTTTGAGCAATTCAGCAGAGAAAAAG
AATTCGTCCTTGGTAATCTGGCCAAAAAAGCAAAGCTGACAGAAGATCTGTTTAACCAAGTGCCAGGGATTCAGTGCGAC
CCCTTGCAAAGAGCCATGTATGCGTTTCCTCGGATTCTCATCCCTGCCAAGGCCGTGGAGGCGGCTCAGTCCCATAAAAT
GGCTCCAGACTTGGTTTACTACATGAAACTCTTGGAGGAGACTGGCATCTGTGTTGTGCCTGGCAGTGGCTTTGGACAGC
GAGAAGGCACTTACCACTTCAGAATGACAATTCTCCCTCCCGTGGAGAAACTGAAGACCCTGCTCCATAAGGTCTTTCAC
CTGAACTTCCTGGAGCAGTACTCC
ORF - retro_mmus_382 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 62.95 % |
| Parental protein coverage: | 87.9 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | TEVIRANIGDAQAMGQRPITFFRQVLALCVYPNLLSSPDFPEDAKRRAERILQACGGHSLGAYSISSGIQ |
| TEVIRANIGDA.AMGQ.PITF..QV.ALC..PNLL.SP.FPEDAK..A.RILQACGG.SLG.YS.S.G.. | |
| Retrocopy | TEVIRANIGDAHAMGQQPITFLHQVMALCTFPNLLNSPSFPEDAKKGAGRILQACGGNSLGFYSASQGFN |
| Parental | PIREDVAQYIERRDGGIPADPNNIFLSTGASDAIVTMLKLLVAGEGRARTGVLIPIPQYPLYSAALAELD |
| ...ED.A..I..RDG..PADP.NI.L.TGASD.I.T.LKLLV.G.G..RTG..IPIPQYPLYSA...EL. | |
| Retrocopy | CTCEDMAAFITGRDG-VPADPDNIYLTTGASDGISTILKLLVSGAGKSRTGEMIPIPQYPLYSAVISELN |
| Parental | AVQVDYYLDEERAWALDIAELRRALCQARDR-CCPRVL-CVINPGNPTGQVQTRECIEAVIRFAFEEGLF |
| AVQV.Y.LDE...WAL...ELRRAL.QA.D....P.VL.C.INPGNPT.QVQ.R.C.E.VI.FA..E.LF | |
| Retrocopy | AVQVNYILDEN-CWALNVDELRRALRQAKDH*SGPKVL>CIINPGNPTSQVQSRKCREDVICFA*KEKLF |
| Parental | LMADEVYQDNVYAEGSQFHSFK-KVLTE-MGPPYATQQELASFHSVSKGYMGECGFRGGYVEVVNMDAEV |
| L.ADE.YQDNV......FHSFK.K..T..MG..Y....ELASFHS.SKGY.G.C..RGGY.EV.....E. | |
| Retrocopy | LLADELYQDNVCSPDCRFHSFK>KCFTR*MGHEYSSNVELASFHSTSKGYVGKCDYRGGYMEVISLHPEI |
| Parental | QKQMAKLMSVRLCPPVPGQALMGMVVSPPTPSEPSFKQFQAERQEVLAELAAKAKLTEQVFNEAPGIRCN |
| ..Q..KL.S.RLCPPV.GQ..M..VV.PP.P.E.SF.QF..E...VL..LA.KAKLTE..FN..PGI.C. | |
| Retrocopy | EGQLVKLLSIRLCPPVSGQVAMDIVVNPPVPGEESFEQFSREKEFVLGNLAKKAKLTEDLFNQVPGIQCD |
| Parental | PVQGAMYSFPQIQLPLKAVQRAQDLGLAPDMFFCLCLLEETGICVVPGSGFGQQEGTYHFRMTILPPMEK |
| P.Q.AMY.FP.I..P.KAV..AQ....APD......LLEETGICVVPGSGFGQ.EGTYHFRMTILPP.EK | |
| Retrocopy | PLQRAMYAFPRILIPAKAVEAAQSHKMAPDLVYYMKLLEETGICVVPGSGFGQREGTYHFRMTILPPVEK |
| Parental | LRVLLEKLRHFHAKFTHEYS |
| L..LL.K...FH..F...YS | |
| Retrocopy | LKTLLHKV--FHLNFLEQYS |
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 |
|---|---|---|
| SRP007412_brain | 0 .02 RPM | 12 .57 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 18 .76 RPM |
| SRP007412_heart | 0 .00 RPM | 35 .30 RPM |
| SRP007412_kidney | 0 .04 RPM | 42 .33 RPM |
| SRP007412_liver | 0 .46 RPM | 375 .96 RPM |
| SRP007412_testis | 0 .41 RPM | 2 .47 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_382 was not detected
No EST(s) were mapped for retro_mmus_382 retrocopy.
No TSS is located nearby retro_mmus_382 retrocopy 5' end.
retro_mmus_382 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_382 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Mus musculus | ENSMUSG00000022546 | 1 retrocopy |
retro_mmus_382 ,
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