RetrogeneDB ID: | retro_btau_1771 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | X:115769176..115769527(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CMTM3 | ||
| Ensembl ID: | ENSBTAG00000047654 | ||
| Aliases: | None | ||
| Description: | CKLF-like MARVEL transmembrane domain-containing protein 3 [Source:RefSeq peptide;Acc:NP_001092869] |
Retrocopy-Parental alignment summary:
>retro_btau_1771
TCTGCCTTCCTCACCACCCTCTTGCTTGGGGTCCCTGCCGGCCCTCGATTTTCTCCTCGCTGCTGCCAGGCTGATGAACA
AGTGGCAGGGCTGGTGCAGACCCGTGTTGGACTTCCTAAGAGACATCACAGCGGCCCGCATCTGTTTCGCCATCTCCATC
ACGCCTGTTTGGAAATAACAGGGATGGGGCTGCCTAAGCGGCCCCGGCGTTGGGTTTTCTTGGCCTTCATGCTGTTTGCT
CTTGACTTCAACCTCATCTTTTTCACCATGGCCAAATTTCTCAAACCAGGGGACGCTGCAGAGATGACCACAGGCGACAA
GGCAGAAATAGAGAATTCTGATGATGACTCT
ORF - retro_btau_1771 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 58.33 % |
| Parental protein coverage: | 85.4 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | SAFLTAPLLEF-LLALCFLFADAMQLNDKWQGLCWPMMDFLRCVTAALIYFAISITAVAK-YPDGASKAA |
| SAFLT..LL...L.AL.FL.A.A...N.KWQG.C.P..DFLR..TAA.I.FAISIT.V.K...DGA..AA | |
| Retrocopy | SAFLTTLLLGV>LPALDFLLAAARLMN-KWQGWCRPVLDFLRDITAARICFAISITPVWK>NRDGAA*AA |
| Parental | GVFGFF-ATIVFAIDFYLIFNDVAKFLKQEDSAQETTADKAEEEDSDSDS |
| ...GF..A...FA.DF.LIF...AKFLK..D.A..TT.DKAE.E.SD.DS | |
| Retrocopy | PALGFL>AFMLFALDFNLIFFTMAKFLKPGDAAEMTTGDKAEIENSDDDS |
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 |
|---|---|---|
| ERP005899_liver | 0 .00 RPM | 1 .37 RPM |
| ERP005899_muscle | 0 .00 RPM | 6 .49 RPM |
| SRP017611_brain | 0 .00 RPM | 2 .51 RPM |
| SRP017611_kidney | 0 .06 RPM | 7 .53 RPM |
| SRP017611_liver | 0 .00 RPM | 3 .93 RPM |
| SRP030211_testis | 0 .00 RPM | 2 .98 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1771 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1771 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_1771 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 5 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000016093 | 3 retrocopies | |
| Bos taurus | ENSBTAG00000047654 | 1 retrocopy |
retro_btau_1771 ,
|
| Pteropus vampyrus | ENSPVAG00000013762 | 1 retrocopy |