RetrogeneDB ID: | retro_mdom_1073 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 3:523158973..523160380(+) | ||
| Located in intron of: | ENSMODG00000029418 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | KBTBD8 | ||
| Ensembl ID: | ENSMODG00000003276 | ||
| Aliases: | None | ||
| Description: | kelch repeat and BTB (POZ) domain containing 8 [Source:HGNC Symbol;Acc:30691] |
Retrocopy-Parental alignment summary:
>retro_mdom_1073
ATGGCCGTGATGGGAGATGCGACCAAGTGTCCGCCACAGCCACCCAACGGTACCCCACCCACCCTACCCGTGGCCGCACC
TGGGCCTGTGGACGCCGCCCATGCATGCAGCATCCTCCAGCAGCTCAAGACCATGTACCACGAGGGCCAATTGACTGACA
TCGTTGTGGAGGTGAAACACGGCAAGACTTTCTCCTGCCACCACAACGTGCTGGCAGCTATCATTCCCTACTTCAGATCA
ATGTTCACTAGCGGCCTTACTGAAAGTACCCAGAAAGAAGTGCGTATAGTAGGTGTTGAAGCTGAGTCAATGAATTTAGT
ATTGAACTATGCATATACCTCCAGAGTCGTACTCACCGAGGCCAATGTCCAAGCTTTGTTCACTGCGGCAAGCATCTTCC
AGATCCCTTCCATACAGGACCAGTGTGCTAATTATATGATGAGTCATCTGGATCCATAAAACTCTATTGGAGTTTTCATC
TTTGCTGATCATTATGGTCATCAGGAGCTAAAAGACCGATCACAAGAGTATATTCGTAAAAATTTTCTGTGTGTCACCAA
AGAACAAGAGTTTCTCCATTTAAGGAAAGACCAACTCATCAGTATACTGGTCAGTGATGACTTAAATGTTGACAAAGAAG
AGCATGTTTACGACAGTATCATCAGGTATTTTGAACATGAACGAGAGAGAAGAGAAGCACACCTTCCAGAAATATTTGCC
AAGTGCATCCGTATGCCACTGATGGAAGATACCTTTGTTGAAAAAATTCCTCCCATGTTTGCAGAGGCCATCGTCCAGAA
GGGGCTGTGTAGTGCCAATGGCTACACGCAGAGGCTTGGGATGACTGCATTGGAAATGATCATATGTTTTGATACTACCC
ACAAACACTCAGGAAAGAAACAAACAGTGCCTTGTCTCGATATAGTCACAGGGAGAGTGTTTAAACTATGCAAACCACCC
AATGACCTGAGAGAGGTGGGAATTCTTGTGTCCCCAGATAATGACATTTACATCGCAGGAGGCTATAGGCCAAGCAGCAG
TGAAGTTTCCATTGACCACAAGGCAGAGAGTGACTTCTGGATGTATGATCATGCTACAAATAGATGGCTACCCAAAGCTC
CTTTACTTCGAGCCAGAATAGGCTGCAAGCTGGTTCATTGCTGTGGGAAACTTTATGCAATAGGTGGGCGCATTTATGAA
GGCGATGGGAGGAACCCCCTAAAATCTGTGGAGTATTATGACGGCAGAGATAACTGTTGGACAGCTGTTAGCCCAATGCC
TGTAGCAATGGAGTTCCACAGTGCTGTGGAGTATAAAGAAAACATCGATGTTTTACAGGGAGAATCTTTCCTCTGCTATG
ATCCTCAGAAAGACTACTGGGGCTTTTTAACACCTATGACTGTGCCT
ORF - retro_mdom_1073 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 95.52 % |
| Parental protein coverage: | 78.17 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MAATGDATKCPPQPPNGAPPAPPVAAPGPVDAAHACSILQQLKTMYDEGQLTDIVVEVDHGKTFSCHRNV |
| MA..GDATKCPPQPPNG.PP..PVAAPGPVDAAHACSILQQLKTMY.EGQLTDIVVEV.HGKTFSCH.NV | |
| Retrocopy | MAVMGDATKCPPQPPNGTPPTLPVAAPGPVDAAHACSILQQLKTMYHEGQLTDIVVEVKHGKTFSCHHNV |
| Parental | LAAISPYFRSMFTSGLTESTQKEVRIVGVEAESMNLVLNYAYTSRVVLTEANVQALFTAASIFQIPSIQD |
| LAAI.PYFRSMFTSGLTESTQKEVRIVGVEAESMNLVLNYAYTSRVVLTEANVQALFTAASIFQIPSIQD | |
| Retrocopy | LAAIIPYFRSMFTSGLTESTQKEVRIVGVEAESMNLVLNYAYTSRVVLTEANVQALFTAASIFQIPSIQD |
| Parental | QCANYMISHLDPQNSIGVFIFADHYGHQELKDRSQEYIRKKFLCVTKEQEFLHLRKDQLISILDSDDLNV |
| QCANYM.SHLDP.NSIGVFIFADHYGHQELKDRSQEYIRK.FLCVTKEQEFLHLRKDQLISIL.SDDLNV | |
| Retrocopy | QCANYMMSHLDP*NSIGVFIFADHYGHQELKDRSQEYIRKNFLCVTKEQEFLHLRKDQLISILVSDDLNV |
| Parental | DKEEHVYDSIIRWFEHERERREAHLPEIFAKCIRMPLMEDTFVEKIPPMFAEAIVQKGPCSANGYTQRLG |
| DKEEHVYDSIIR.FEHERERREAHLPEIFAKCIRMPLMEDTFVEKIPPMFAEAIVQKG.CSANGYTQRLG | |
| Retrocopy | DKEEHVYDSIIRYFEHERERREAHLPEIFAKCIRMPLMEDTFVEKIPPMFAEAIVQKGLCSANGYTQRLG |
| Parental | MTASEMIICFDAAHKHSGKKQTVPCLDIVTGRVFKLCKPPNDLREVGILVSPDNDIYIAGGYRPSSSEVS |
| MTA.EMIICFD..HKHSGKKQTVPCLDIVTGRVFKLCKPPNDLREVGILVSPDNDIYIAGGYRPSSSEVS | |
| Retrocopy | MTALEMIICFDTTHKHSGKKQTVPCLDIVTGRVFKLCKPPNDLREVGILVSPDNDIYIAGGYRPSSSEVS |
| Parental | IDHKAESDFWMYDHATNRWLPKAPLLRARIGCKLVHCCGKLYAIGGRVYEGDGRNPLKSVECYDGRDNCW |
| IDHKAESDFWMYDHATNRWLPKAPLLRARIGCKLVHCCGKLYAIGGR.YEGDGRNPLKSVE.YDGRDNCW | |
| Retrocopy | IDHKAESDFWMYDHATNRWLPKAPLLRARIGCKLVHCCGKLYAIGGRIYEGDGRNPLKSVEYYDGRDNCW |
| Parental | TAVSPMPVAMEFHSAVEYKENIYVLQGESFLCYDPQKDYWGFLTPMTVP |
| TAVSPMPVAMEFHSAVEYKENI.VLQGESFLCYDPQKDYWGFLTPMTVP | |
| Retrocopy | TAVSPMPVAMEFHSAVEYKENIDVLQGESFLCYDPQKDYWGFLTPMTVP |
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 .00 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 0 .00 RPM |
| SRP007412_heart | 0 .00 RPM | 0 .00 RPM |
| SRP007412_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .00 RPM |
| SRP007412_testis | 0 .00 RPM | 0 .00 RPM |
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_1073 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_1073 was not experimentally validated.
Retrocopy orthology:
Monodelphis domestica does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Monodelphis domestica | ENSMODG00000003276 | 1 retrocopy |
retro_mdom_1073 ,
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