RetrogeneDB ID: | retro_dnov_1969 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_39510:13218..13687(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | HNMT | ||
| Ensembl ID: | ENSDNOG00000015340 | ||
| Aliases: | None | ||
| Description: | histamine N-methyltransferase [Source:HGNC Symbol;Acc:5028] |
Retrocopy-Parental alignment summary:
>retro_dnov_1969
GTAGCCAAGACATCAAACCTTGAGAACATAAAGCTTGCTTGGCATAAGGAGACATCATCTGAATATCAAAATAGGATGAT
GGAGAAAAAAGAGTTTCAAAAGTGGGACTTTATTCACATGGTTCAGATGCTGTGTTATGTAAAAGTCATCCCAGCTACCC
TGAAATTCTTCCATGGTCTCTTAGCTACCAATTCTCCTTGTTCTTGTATTGGGAACCAGTGGCTGGGACAAGCTGTGGAA
AAAGTATGGATCCCACTTACTTTGGGATGACCTTTACTAGTACATTTCATCATCTGACCCCACGCAGATGCTGGACAACT
TGGGGATTAAGCATGAATGTTACAAACCTCTGTCCACCGTGGATGTATCTGACTGTTTTATTGATGGCAATGTAAATGGA
GACTTGCTCTGGGTTTTTTTGACAGAAACCCTCAACTTTAGCACTACAGCACTACATGATCTCAAAGCA
ORF - retro_dnov_1969 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 74.38 % |
| Parental protein coverage: | 61.15 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | VAKTSNLENIKFAWHKETSSEYQNKMMEKKEFQKWDFIHMIQMLYYVKDIPATLKFFHGLLAASAK-ILI |
| VAKTSNLENIK.AWHKETSSEYQN.MMEKKEFQKWDFIHM.QML.YVK.IPATLKFFHGLLA......L. | |
| Retrocopy | VAKTSNLENIKLAWHKETSSEYQNRMMEKKEFQKWDFIHMVQMLCYVKVIPATLKFFHGLLATNSP>VLV |
| Parental | ILVSGTSGWDKLWKKYGSRLPRDDFCLYITSSDLMQTLDNLGIKYNCYDLPSTMDISDCFIDGNENGDLL |
| ...SG...WDKLWKKYGS.L..DD...YI.SSD..Q.LDNLGIK..CY...ST.D.SDCFIDGN.NGDLL | |
| Retrocopy | LGTSG---WDKLWKKYGSHLLWDDLY*YISSSDPTQMLDNLGIKHECYKPLSTVDVSDCFIDGNVNGDLL |
| Parental | WDFLTETLNFNRTAPPDLKA |
| W.FLTETLNF..TA..DLKA | |
| Retrocopy | WVFLTETLNFSTTALHDLKA |
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 | 3 .50 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 7 .70 RPM |
| SRP012922_heart | 0 .00 RPM | 0 .70 RPM |
| SRP012922_kidney | 0 .00 RPM | 1 .37 RPM |
| SRP012922_liver | 0 .00 RPM | 2 .94 RPM |
| SRP012922_lung | 0 .00 RPM | 5 .04 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 0 .17 RPM |
| SRP012922_spleen | 0 .00 RPM | 26 .44 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_1969 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 4 parental genes, and 5 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000015340 | 1 retrocopy |
retro_dnov_1969 ,
|
| Myotis lucifugus | ENSMLUG00000015156 | 2 retrocopies | |
| Monodelphis domestica | ENSMODG00000001168 | 1 retrocopy | |
| Tursiops truncatus | ENSTTRG00000012879 | 1 retrocopy |