RetrogeneDB ID: | retro_cfam_2024 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | JH373239.1:736912..737639(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | DNPEP | ||
| Ensembl ID: | ENSCAFG00000015399 | ||
| Aliases: | None | ||
| Description: | aspartyl aminopeptidase [Source:HGNC Symbol;Acc:2981] |
Retrocopy-Parental alignment summary:
>retro_cfam_2024
ATCATCGCTTGTGCTGTGGGAGGCCAGGGTGTTCCTGGCAATGGTTTCAGCCTCACCGGGGCCCACCCGGACAGTCCCTG
CCTCCGGGTGCAACGGCGCTCCCGCCGTAGCCAGGTGGGCTTCCAGCAGGTTGGCGTGGAGACCTCTGCTGTGGGATCTG
GAGCACCCGGTCCGACGGGGACCTGACCTTGACTGGACGCGTCCTTGTCAAGTGCCCTCCCTCAGGCCGGCTGGGTCAGC
GGCTGGGGCACGTGCACCGGCCCATTCTCCCCATCCCCCACCTGGCCATCCCTCTGCCGTGAAATGTCAACGAGAACTTT
GGGCCCCACAGGGAGCTGCCCTTAGTCCCCATTCTTGCCGCAGCTGTCCCGGAGGAGCTGGAGAAGGGGACTCCTGAGCC
TGGGCCTCTCAATGCTGCAGATGACCGCCACCACTCCTTCTCATGTCCCTTCTGTGGCCCCTCTGGGACTGAGCCCCGAG
GAGATCTTGGAGGTGGAGCTGGGCCTTGCTGGCACGCAGCCTGCGGTCCTGGCTGGTGCCTATGAGGAGTTCATCTTTGC
GCCTGGCTAGACAATCTGCACAGCTGCTTCTGTGCCCTGCAGGCTTTGATCGACTCCTGTGTGGCCCCTGCCTCTTTGGC
CCTGGAGCCCCACTGTGCATGGTCGCTCTCTATGACAACGAAGAGGCGGGCTCCGAGGGTGCCCAGGGGGCTCAGTCACT
GCTGACA
ORF - retro_cfam_2024 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.32 % |
| Parental protein coverage: | 51.8 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 5 |
Retrocopy - Parental Gene Alignment:
| Parental | IIAFAVGGQYVPGNGFSLIGAHTDSPCLRVKRRSRRSQVGFQQVGVETYGGG-IWSTWFDRDLTLAGRVI |
| IIA.AVGGQ.VPGNGFSL.GAH.DSPCLRV.RRSRRSQVGFQQVGVET...G.IWST..D.DLTL.GRV. | |
| Retrocopy | IIACAVGGQGVPGNGFSLTGAHPDSPCLRVQRRSRRSQVGFQQVGVETSAVG<IWSTRSDGDLTLTGRVL |
| Parental | VKCPTSGRLEQRLVHVDRPILRIPHLAIHLQRNVNENFGPNMEMHLVPILATAVQEELEKGTPEPGPLNA |
| VKCP.SGRL.QRL.HV.RPIL.IPHLAI.L..NVNENFGP..E..LVPILA.AV.EELEKGTPEPGPLNA | |
| Retrocopy | VKCPPSGRLGQRLGHVHRPILPIPHLAIPLP*NVNENFGPHRELPLVPILAAAVPEELEKGTPEPGPLNA |
| Parental | ADDRHHS-VLMSLL-CAHLGLSPEDILEMELCLADTQPAVLGGAYEEFIFAPR-LDNLHSCFCALQALID |
| ADDRHHS..LMSLL..A.LGLSPE.ILE.EL.LA.TQPAVL.GAYEEFIFAP..LDNLHSCFCALQALID | |
| Retrocopy | ADDRHHS<LLMSLL<VAPLGLSPEEILEVELGLAGTQPAVLAGAYEEFIFAPG<LDNLHSCFCALQALID |
| Parental | SCAAPASLSSEPH-VRMIALYDNEEVGSESAQGAQSLLT |
| SC.APASL..EPH...M.ALYDNEE.GSE.AQGAQSLLT | |
| Retrocopy | SCVAPASLALEPH<LCMVALYDNEEAGSEGAQGAQSLLT |
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 |
|---|---|---|
| SRP012049_cerebellum | 0 .00 RPM | 24 .86 RPM |
| SRP017611_brain | 0 .08 RPM | 16 .04 RPM |
| SRP017611_kidney | 0 .00 RPM | 39 .95 RPM |
| SRP017611_liver | 0 .07 RPM | 24 .07 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_2024 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_2024 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cfam_2024 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000015399 | 2 retrocopies |
retro_cfam_2024 , retro_cfam_846,
|