RetrogeneDB ID: | retro_mmus_3355 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 9:75372794..75373569(-) | ||
| Located in intron of: | ENSMUSG00000042688 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Zar1l | ||
| Ensembl ID: | ENSMUSG00000056586 | ||
| Aliases: | Zar1l, XM_359419 | ||
| Description: | zygote arrest 1-like [Source:MGI Symbol;Acc:MGI:3690051] |
Retrocopy-Parental alignment summary:
>retro_mmus_3355
GGAACTCCCATTTTCCTAGCTGGGCTTATGGTGCCAGCAACATGTCTCTCAGCCCTATATGGACCCTTACAACAGGGCTC
AGCTTCAGGCCGTTTCTACTCCGATGAACCCCAACCCGAGTCTCTATGGCTACACAGGGCCCACACCAAGGAGGTGGGCG
TCCAGGTGAGCCTTCGAGTGGACGAGTCAGTGCAGTGTTCACTGGGGTCACAGACACTAACAGCAGCTCCCTCTCAGACA
GAACCAGCTCCAGGAAGCCCACGAAACCTTGGGAAGTAGGGCGGAGAGCCTTGACCCCACGACCCAGGATGCGGAAGACA
GAGAAAGCCAGGAGCTCACGGGACCAACAGAGGCCAATCAGCTGTTGTCACCTACATGGAGAGGGTATAGTGAGGAGCAA
GAGAAACTCCCAGGGCTGAAGGGATTGGGGGAGAAGTATGCCCCCAGCCCTCAGGACAGGAAGGGCAAGCAGTTTTTGGA
ACCAAAATACGGCTATTTTTCACGGTAAAGATTGTAAGATGAGATGGGCAAGTGCTTAATGTGTGTTGCACCATCGCAGG
TACCACCAAGGTTTATTTCAAGCTGCTCTGTAACAAGTGCCCATGAGTTTTAACCTTACCGAGTGGAAGCAATCCAATGT
CAGACCTGCTTAAGATTCTGTTGTTCCTGTTCTCAAAAGAAAAGACACGTTGGTCTCTGGAGGTCACATCGCCAGGAGCT
CTGTGGCCACTACAAAGGCAAGAAATCCTCTTGTAGTGTCTTCTTCAGCTTTAAA
ORF - retro_mmus_3355 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 68.05 % |
| Parental protein coverage: | 87.97 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 6 |
Retrocopy - Parental Gene Alignment:
| Parental | GAPIFLARLRVPANVSQSCMNPYNRAQLQAVSTQMDPNL-SLWLRSVHTTEVGVQVSLRVDKSVQCSQGS |
| G.PIFLA.L.VPA........P..............P...SLWL...HT.EVGVQVSLRVD.SVQCS.GS | |
| Retrocopy | GTPIFLAGLMVPATCLSALYGPLQQGSASGRFYSDEPQPESLWLHRAHTKEVGVQVSLRVDESVQCSLGS |
| Parental | QTL-HSSSLSDRTSSRKPTEAWEVGRRALIRRP-QDGEDEESQEELTGPTEASQLLLPTWSRDREEQ--F |
| QTL..SSSLSDRTSSRKPT..WEVGRRAL..RP.QD.ED.ESQE.LTGPTEA.QLL.PTW....EEQ... | |
| Retrocopy | QTL<NSSSLSDRTSSRKPTKPWEVGRRALTPRP<QDAEDRESQE-LTGPTEANQLLSPTWRGYSEEQEKL |
| Parental | PRLKELGEEYAHSPQDRKGKQFLELKYGYF-HCKDCKRRWESA-YVWC-ISGTNKVYFKQLCNKCQ-KSF |
| P.LK.LGE.YA.SPQDRKGKQFLE.KYGYF.H.KDCK.RW.SA..V.C.I.GT.KVYFK.LCNKC...SF | |
| Retrocopy | PGLKGLGEKYAPSPQDRKGKQFLEPKYGYF>HGKDCKMRWASA>NVCCTIAGTTKVYFKLLCNKCP<MSF |
| Parental | N-PYRVEEIQCQTCLRVCCSCSPKKRHIDVRRPHRQELCGHCKDKKFSCSVFFSLK |
| N.PYRVE.IQCQTCLR.CCSCS.KKRH....R.HRQELCGH.K.KK.SCSVFFS.K | |
| Retrocopy | N<PYRVEAIQCQTCLRFCCSCSQKKRHVGLWRSHRQELCGHYKGKKSSCSVFFSFK |
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 .00 RPM | 0 .42 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 0 .00 RPM |
| SRP007412_heart | 0 .00 RPM | 0 .00 RPM |
| SRP007412_kidney | 0 .00 RPM | 0 .02 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .00 RPM |
| SRP007412_testis | 2 .15 RPM | 0 .14 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_3355 was not detected
No EST(s) were mapped for retro_mmus_3355 retrocopy.
No TSS is located nearby retro_mmus_3355 retrocopy 5' end.
retro_mmus_3355 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_3355 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 | ENSBTAG00000026384 | 1 retrocopy | |
| Mus musculus | ENSMUSG00000056586 | 1 retrocopy |
retro_mmus_3355 ,
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