RetrogeneDB ID: | retro_cjac_3267 | ||
Retrocopy location | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | 9:15146406..15148431(-) | ||
| Located in intron of: | ENSCJAG00000018891 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ANO6 | ||
| Ensembl ID: | ENSCJAG00000013160 | ||
| Aliases: | None | ||
| Description: | anoctamin 6 [Source:HGNC Symbol;Acc:25240] |
Retrocopy-Parental alignment summary:
>retro_cjac_3267
CTCAACTGGTTTACCAAAGTCCTCAGTGTAGGTGAAAGCATCATCAAGCCAGAGTGAGAGTTTTTCACTGCTCCATTTGA
GAAGAACCGGATGAAGGATTTTTACATTGTGGTGAGAGATGCTTTCTTCAGTCCAGCCACCAGAAGCCGCATTGTGTCCT
TCATCCTCTCCCGGGTCAAGTATCAAATGATAAACAATGTTAGCAAGTTTGGGATCAACAGATTCGTAAACTCTGGGATC
TACAAGGCAGCTTTCCCACTTCATGACTGCAAATTCCGCCGTCACTCAGTGGATCCCAGCTGTCCTAATGAACGGTACCT
TCTGTACAGAGAACGGTCTCATCCTCGAAGCATATACAAAAAGCAGCCCTTGGATCTTACCAGGAAATCTTATGGAGAGA
AGATCGGAATCTACTTTGCTTGGCTGGGCTATTACACTCAGATGCTTCTCCTGGCAGCAGTCGTAGGAGTGGCTTGCTTT
CTCTGCGGATATCTTAATCAAGATAACTATACATGGAGCAAAGAAGTTTGTCCTCCTGATATTGGTGGCAAGATCATGAC
GTGTCCTCAGTGTGATAAGCATTGTCCATTCTGGAAACTCAATATGACTTGCGAGTCTTCAAAGAAATTGTGCCTCTTTG
ACAGTTTGGGAACCCTCATCTTTGCAGTATTTATGGGACTATGGGTTACCTTGTTTTTGAAGTTTTGGAAGTGACGCCAA
GCAGAACTTGAGTATGAATGGGACACTGTTGAGTTACAGCAGGAAGAACAAGCCTGGCCAGAATATGAAGCATGATGTAC
TCACGTAGCGATAAGTGAGATTACTCAGGAAGAAGAACGCTTTCCCTTTACTGCCTGGGGAAAATGTCTACGGATAACCC
TCTGTGCAAGTGCTGTTCTTTTCTGGATCCTACTGATCATCGCTTCAGTTATTGGGATCATTGTCTGGGGGCTCTCAGTG
TTTATTGTCTTTTCTACACAACTTAAGAAGCTTAATGGGACAGACCCAATCCAGAAGTACCTGACTCCACAGCCAGCCAC
GTCCATCACGGCCTCCATCATCAGCTTTATCATGATTCTGAACACCGTATAGGAAAGAGTGGCAATTATGATTACTAACT
GTGAACTCCCAAGGACCCAGACTGATTACGAGAACAGCCTCACCATGAAGATGTTCTTATTCCAGTTTGTCAGCTACTAC
TCTTCATGCTTCTGCATAGCATTCTTTAAGGGCAAATTTGTAGGCTAGCCAGAGGACCCAGTTTATTGGTTGGGAAAATA
CAGAAATGAAGAGTGTGACCCAGGTGGCCGTCTTCTTGAACTGACAACTCAGCTGACAACAATCATGGGAGGAAAAGCAA
TCTGGAGTGACACACAAGAAGTATTATTGCCCTGGATGATGAATCTAATTGGACGATTTCACAGAGTTTCTGGATCAGAA
AAGATAACCCCACGATGGGAACAGGAATACCATCTCCAACCTATGAGAAAACTGGGATTATTTTATGAATATCTTGAAAT
GATTATTCAGTTTGGGTTTGTCACCTTATTTGTGGCCTCTTTTCCACTGGCCCCTCTGTTGGCTCTCGTGAACAATATAT
TGGAAATAAGAGTGGACGCATGGAAACTGACCACCCAGTTTAGACGCCTGGTACCAGAGAAAGCCTAAGACATTGGAGCA
TGGCAGCCCATCATGCAAGGAATAGCAATTCTGGCTGTGGTGACCAATGTCATGATCATTGCTTTCACATCAGACATGAT
CCCCCGCCTGGTGTACTACTGGTCCTTCTCTGTCCCTCCCTACGGAAACCACACTTCCTACACCATGGATGGGTAAATCA
GCAACACTCTCTCTATCTTCAAAGTTGCAGACTTCAAAAACAAAAGCAAGGGAAGCCCATACTCTGAGCAGGGTAACCAT
ACCACATGCAGGTATCATGATTTCCGATACCCACCTGGACACCCCCAGGAGTATAAACACAACATCTACTATTGGCACGT
GATTGCAGCCAAGCTGGCTTTCATC
ORF - retro_cjac_3267 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 91.14 % |
| Parental protein coverage: | 75.98 % |
| Number of stop codons detected: | 7 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | LNWFTKVLSVDESIIKPEQEFFTAPFEKNRMNDFYIVDRDAFFNPATRSRIVYFILSRVKYQVINSVSKF |
| LNWFTKVLSV.ESIIKPE.EFFTAPFEKNRM.DFYIV.RDAFF.PATRSRIV.FILSRVKYQ.IN.VSKF | |
| Retrocopy | LNWFTKVLSVGESIIKPE*EFFTAPFEKNRMKDFYIVVRDAFFSPATRSRIVSFILSRVKYQMINNVSKF |
| Parental | GINRLVNSGIYKAAFPLHDCKFRRQSEDPSCPNERYLLYREWAHPRSIYKKQPLDLIRKYYGEKIGIYFA |
| GINR.VNSGIYKAAFPLHDCKFRR.S.DPSCPNERYLLYRE..HPRSIYKKQPLDL.RK.YGEKIGIYFA | |
| Retrocopy | GINRFVNSGIYKAAFPLHDCKFRRHSVDPSCPNERYLLYRERSHPRSIYKKQPLDLTRKSYGEKIGIYFA |
| Parental | WLGYYTQMLLLAAVVGVACFLYGYLNQDNCTWSKEVCHPDIGGKIIMCPQCDKHCPFWKLNITCESSKKL |
| WLGYYTQMLLLAAVVGVACFL.GYLNQDN.TWSKEVC.PDIGGKI..CPQCDKHCPFWKLN.TCESSKKL | |
| Retrocopy | WLGYYTQMLLLAAVVGVACFLCGYLNQDNYTWSKEVCPPDIGGKIMTCPQCDKHCPFWKLNMTCESSKKL |
| Parental | CIFDSFGTLIFAVFMGVWVTLFLEFWKRRQAELEYEWDTVELQQEEQARPEYEARCTHIVINEITQEEER |
| C.FDS.GTLIFAVFMG.WVTLFL.FWK.RQAELEYEWDTVELQQEEQA.PEYEA.CTH..I.EITQEEER | |
| Retrocopy | CLFDSLGTLIFAVFMGLWVTLFLKFWK*RQAELEYEWDTVELQQEEQAWPEYEA*CTHVAISEITQEEER |
| Parental | IPFTAWGKCLRITLCASAVFFWILLIIASVIGIIVYRLSVFIVFSTQLKNLNGTDPIQKYLTPQTATSIT |
| .PFTAWGKCLRITLCASAV.FWILLIIASVIGIIV..LSVFIVFSTQLK.LNGTDPIQKYLTPQ.ATSIT | |
| Retrocopy | FPFTAWGKCLRITLCASAVLFWILLIIASVIGIIVWGLSVFIVFSTQLKKLNGTDPIQKYLTPQPATSIT |
| Parental | ASIISFIIIMILNTIYERVAIMITNFELPRTQTDYENSLTMKMFLFQFVNYYSSCFYIAFFKGKFVGYPG |
| ASIISF..IMILNT..ERVAIMITN.ELPRTQTDYENSLTMKMFLFQFV.YYSSCF.IAFFKGKFVG.P. | |
| Retrocopy | ASIISF--IMILNTV*ERVAIMITNCELPRTQTDYENSLTMKMFLFQFVSYYSSCFCIAFFKGKFVG*PE |
| Parental | DPVYWLGKYRNEECDPGGCLLELTTQLTIIMGGKAIWNNIQEVLLPWIMNLIGRFHRVSGSEKITPRWEQ |
| DPVYWLGKYRNEECDPGG.LLELTTQLT.IMGGKAIW...QEVLLPW.MNLIGRFHRVSGSEKITPRWEQ | |
| Retrocopy | DPVYWLGKYRNEECDPGGRLLELTTQLTTIMGGKAIWSDTQEVLLPWMMNLIGRFHRVSGSEKITPRWEQ |
| Parental | DYHLQPMGKLGLFYEYLEMIIQFGFVTLFVASFPLAPLLALVNNILEIRVDAWKLTTQFRRLVPEKAQDI |
| .YHLQPM.KLGLFYEYLEMIIQFGFVTLFVASFPLAPLLALVNNILEIRVDAWKLTTQFRRLVPEKA.DI | |
| Retrocopy | EYHLQPMRKLGLFYEYLEMIIQFGFVTLFVASFPLAPLLALVNNILEIRVDAWKLTTQFRRLVPEKA*DI |
| Parental | GAWQPIMQGIAILAVVTNAMIIAFTSDMIPRLVYYWSFSVPPYGNHTSYTMDGYINNTLSIFKVADFKNK |
| GAWQPIMQGIAILAVVTN.MIIAFTSDMIPRLVYYWSFSVPPYGNHTSYTMDG.I.NTLSIFKVADFKNK | |
| Retrocopy | GAWQPIMQGIAILAVVTNVMIIAFTSDMIPRLVYYWSFSVPPYGNHTSYTMDG*ISNTLSIFKVADFKNK |
| Parental | SKGNPYSEQGNHTTCRYRDFRYPPGHPQEYKHNIYYWHVIAAKLAFI |
| SKG.PYSEQGNHTTCRY.DFRYPPGHPQEYKHNIYYWHVIAAKLAFI | |
| Retrocopy | SKGSPYSEQGNHTTCRYHDFRYPPGHPQEYKHNIYYWHVIAAKLAFI |
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 |
|---|---|---|
| SRP051959_colon | 0 .00 RPM | 42 .27 RPM |
| SRP051959_heart | 0 .07 RPM | 81 .76 RPM |
| SRP051959_kidney | 0 .02 RPM | 54 .60 RPM |
| SRP051959_liver | 0 .04 RPM | 47 .78 RPM |
| SRP051959_lung | 0 .02 RPM | 92 .42 RPM |
| SRP051959_lymph_node | 0 .05 RPM | 58 .15 RPM |
| SRP051959_skeletal_muscle | 0 .07 RPM | 62 .13 RPM |
| SRP051959_spleen | 0 .02 RPM | 97 .98 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_3267 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_3267 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_3267 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 | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000013160 | 1 retrocopy |
retro_cjac_3267 ,
|