RetrogeneDB ID: | retro_cfam_1670 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | 4:68236263..68237013(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ARRB2 | ||
| Ensembl ID: | ENSCAFG00000015905 | ||
| Aliases: | None | ||
| Description: | arrestin, beta 2 [Source:HGNC Symbol;Acc:712] |
Retrocopy-Parental alignment summary:
>retro_cfam_1670
ATACTTCAGAATTGGCCCTAGTCTGTCACACTGCAGCCAAACCCAGCAGACACCGGGAAGGCCTATGGAGCAGACTTTGA
GGTTTGACCCTTCTTTGCCAAATCACTAGAAGAGAAAAACCACAAAAGGAGCTCTGTGTGTCTGGTGATCTGAAAGGTAC
AATTTGCCCCAGAGAAACTGGGCCCCAGCCTCCAGCAGAAACTACCCACCACTTCATGTGTGACCTGTCCTGCACCTTGA
GACTTCCCTGGGCAGGGAGCTATATTACCATGGGGAGCCCCTCAGTGTCAACGTCCATGTCACCAACATCTCCACCAAAA
CAGTCGAGAAGATCAAAGTCTCTATGAGATAGTATGCCAACATCTGCCTCCTAAGCACTGTCCAGTACAATTGGCCTGTG
GCTCAGATCAAACAAAATGACCAGGTGTCACCCAATTCCACATTCTGAAGGTGTACATCATCACTCTGCTGCTCAGTGAC
AACCAGGAGAAGCATGGTCTTGCCCTGGATGGGACGCTCAAGCACAAAGACACCAACTTGGCTTCCAGCACCATTGGAAA
GAAGGTGCCAACAAGGAGGTGCTGGGAATCCTGGTGTTCTACGGGTCAAGGTGAAACTGGCAGCGTCTCATGGTAGGGTA
TCTCCGTGGAGCTGCCTTTTGTTCTTATGCACCCCAAGTCCCACCACCACATCACCTTCCTCGGGCCCCAGATTGCTACT
CCTGAAACAGATGCCCCTGGAGACACCAGC
ORF - retro_cfam_1670 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.97 % |
| Parental protein coverage: | 66.75 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 6 |
Retrocopy - Parental Gene Alignment:
| Parental | IPQNLPCSVTLQPGPEDTGKACGVDFEIRAFCAKSLEEKSHKRNSVRLVIRKVQFAPEK-PGPQPSAETT |
| I.QN.P.SVTLQP.P.DTGKA.G.DFE...F.AKSLEEK.HKR.SV.LVI.KVQFAPEK..GPQP.AETT | |
| Retrocopy | ILQNWP*SVTLQPNPADTGKAYGADFEV*PFFAKSLEEKNHKRSSVCLVI*KVQFAPEK<TGPQPPAETT |
| Parental | RHFLMSDRS-LHLEASLDKELYYHGEPLNVNVHVTNNSTKTIKKIKVSVRQYADICLFSTAQYKCPVAQI |
| .HF.M.D.S.LHLE.SL..ELYYHGEPL.VNVHVTN.STKT..KIKVS.R.YA.ICL.ST.QY..PVAQI | |
| Retrocopy | HHF-MCDLS<LHLETSLGRELYYHGEPLSVNVHVTNISTKTVEKIKVSMR*YANICLLSTVQYNWPVAQI |
| Parental | EQDDQVSPSSTF-CKVYTITPLLSDNREKRGLALDGKLKHEDTNLASSTIVKK-GANKEVLGILVSY-RV |
| .Q.DQVSP.STF..KVY.IT.LLSDN.EK.GLALDG.LKH.DTNLASSTI.KK.GANKEVLGILV.Y.RV | |
| Retrocopy | KQNDQVSPNSTF<LKVYIITLLLSDNQEKHGLALDGTLKHKDTNLASSTIGKK<GANKEVLGILVFY<RV |
| Parental | KVKLVVSRGG-DVSVELPFVLMHPKPHDHITLPRLQTAAPDTDAPVDTN |
| KVKL..S.G....SVELPFVLMHPK.H.HIT....Q.A.P.TDAP.DT. | |
| Retrocopy | KVKLAASHGR<GISVELPFVLMHPKSHHHITFLGPQIATPETDAPGDTS |
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 | 25 .75 RPM |
| SRP017611_brain | 0 .00 RPM | 18 .74 RPM |
| SRP017611_kidney | 0 .07 RPM | 2 .18 RPM |
| SRP017611_liver | 0 .07 RPM | 3 .70 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_1670 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_1670 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cfam_1670 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Ailuropoda melanoleuca | ENSAMEG00000016134 | 1 retrocopy | |
| Canis familiaris | ENSCAFG00000015905 | 1 retrocopy |
retro_cfam_1670 ,
|
| Mustela putorius furo | ENSMPUG00000010797 | 1 retrocopy |