RetrogeneDB ID: | retro_dnov_2271 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_60140:6159..7108(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MTMR1 | ||
| Ensembl ID: | ENSDNOG00000013433 | ||
| Aliases: | None | ||
| Description: | myotubularin related protein 1 [Source:HGNC Symbol;Acc:7449] |
Retrocopy-Parental alignment summary:
>retro_dnov_2271
TTTTGAATACAATACAAAGAAATATTTCCTGAAAATGGGGTGGAAGCTATATGATCCTCTTTCCAAGTATAGGAGGCAGG
GAATTCCTAATGAAAGCTGCAGAATAACTAAGATAAATGAACAGTAGGGGCTGTGTGATGATTACTCCACCCTCTTGGTT
GTGCCAGCAAATATTCCTGATGAAGATTTAAAGAGAGTGGCATTCTTCAGATCAAGGGGTGGGGTGGCAATTTTATCATG
GATTCATCCTGAAAGTCAAGCCACAATTGCTCAGTGTAGTTAGCCCATGGTAGGAGTGAGTGGGAAGTGGAGCAAAGAAG
ATGAAAAATACCTTCAAGCCATCATGGGTTCCAATGCCCAGTCTTATAAAATTTTTATATTCAGTGCCTGGCCAAGTGTT
AATTCCATTGACAAGAAGGCAAAGGGTGGAAGTTATGAAAGTTAAGATGCCTGTCAAAATGCAGAGCTAGTTTTTCTCCA
TATCCACAGTAATCATGATATAAGAGAATCATTATGAAAACTTGAGATTGTGTACCCCAATACTGAGGAAACTCAGTGGT
TGTCTAACTTGGAATCTACTCATTGTCTAGAATATATTAAGATTATTCTTGCAGAGGGTCTTGGGATTGCTGACAAGGTA
GAGTAAGGGAAGATGTCTGTGGTAGTACATTGCAGTGATGGTTGGAAGTGCCCAGCTTAGCTAACTTCCCTGGCCATGCT
TATGTTGAATGGATACTATAGAACCATCTAAGAATATGAAATCCTTGTGGAGAAAGAATGGCTAAGCTTTGGATGGCGAT
TTCAACTAAGAGTTGGTCATGGAGATAAGAATTATGAAGATGCAGACAGATCACCCGTTTTCCTTCAGTTCATTGACTGT
GTCTGACAAATGACAAGACAAGACAACATTTGAATTAATTTCATATTACTATTTTGGACCACCTATATA
ORF - retro_dnov_2271 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 60.06 % |
| Parental protein coverage: | 63.02 % |
| Number of stop codons detected: | 10 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | FAFNYKEKFPING-WKVYDPIAEYKRQGLPNESWKISKINSNYELCDTYPAIIVVPTSVKDDDLSKVAAF |
| F...YKE.FP.NG.WK.YDP...Y.RQG.PNES..I.KIN....LCD.Y....VVP....D.DL..VA.F | |
| Retrocopy | F*IQYKEIFPENG>WKLYDPLSKYRRQGIPNESCRITKINEQ*GLCDDYSTLLVVPANIPDEDLKRVAFF |
| Parental | RAKGRVPVLSWIHPESQATITRCSQPLVGPNDKRCKEDEKYLQTIMDANAQSHKLIIFDARQNSVADTNK |
| R..G.V..LSWIHPESQATI..CS.P.VG...K..KEDEKYLQ.IM..NAQS.K..IF.A.........K | |
| Retrocopy | RSRGGVAILSWIHPESQATIAQCS*PMVGVSGKWSKEDEKYLQAIMGSNAQSYKIFIFSAWPSVNSIDKK |
| Parental | AKSGGYESESAYPNAELVFLEIHNIHVMRESLRKLKEIVYPSIDETRWFSNVDGTHWLEYIRMLLAGAVR |
| AK.G.YES..A..NAELVFL.IH..H..RESL.KL.EIVYP...ET.W.SN...TH.LEYI...LA.... | |
| Retrocopy | AKGGSYES*DACQNAELVFLHIHSNHDIRESL*KL-EIVYPNTEETQWLSNLESTHCLEYIKIILAEGLG |
| Parental | IADKIESGKTSVVVHCSDGWDRTAQLTALAMLMLDSYYRTIKGFEALIEKEWISFGHRFALRVGHGNDNH |
| IADK.E.GK.SVVVHCSDGW...A.LT.LAMLML..YYRTI...E.L.EKEW.SFG.RF.LRVGHG..N. | |
| Retrocopy | IADKVE*GKMSVVVHCSDGWKCPA*LTSLAMLMLNGYYRTI*EYEILVEKEWLSFGWRFQLRVGHGDKNY |
| Parental | ADADRSPIFLQFIDCVWQMTRQFPSAFEFNELFLITIL |
| .DADRSP.FLQFIDCV.QMTRQ......F..LF..T.. | |
| Retrocopy | EDADRSPVFLQFIDCV*QMTRQDNI*INFILLFWTTYI |
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 |
|---|---|---|
| SRP012922_ascending_colon | 0 .00 RPM | 14 .97 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 28 .59 RPM |
| SRP012922_heart | 0 .00 RPM | 18 .33 RPM |
| SRP012922_kidney | 0 .00 RPM | 10 .40 RPM |
| SRP012922_liver | 0 .00 RPM | 12 .69 RPM |
| SRP012922_lung | 0 .00 RPM | 12 .22 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 39 .81 RPM |
| SRP012922_spleen | 0 .00 RPM | 15 .68 RPM |
Dasypus novemcinctus was not studied using ChIP-Seq data.
Dasypus novemcinctus was not studied using EST data.
Dasypus novemcinctus was not studied using FANTOM5 data.
retro_dnov_2271 was not experimentally validated.
Retrocopy orthology:
Dasypus novemcinctus 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 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000013433 | 1 retrocopy |
retro_dnov_2271 ,
|
| Equus caballus | ENSECAG00000007323 | 1 retrocopy | |
| Macropus eugenii | ENSMEUG00000012257 | 1 retrocopy |