RetrogeneDB ID: | retro_dnov_2056 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_44787:6292..7498(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MARK2 | ||
| Ensembl ID: | ENSDNOG00000002037 | ||
| Aliases: | None | ||
| Description: | MAP/microtubule affinity-regulating kinase 2 [Source:HGNC Symbol;Acc:3332] |
Retrocopy-Parental alignment summary:
>retro_dnov_2056
AAGGAGACCCACCTGAAGAATTATCAGTTCTTGCGATTACTAGGCAAAGGTGGCTTTTCCATGACTTTTCTAGCGCGGCA
TGTCCTCACCCGCCATGAGGTAGCCGTGAAAATCATACACAAGAAGGACAGCCCCAGCAGCCTCCGCATGCGCTCCAGAG
AGGTGAGCATAATGAAGAGCCTGCACCATCCCAACATCGTCCAGCTCTTTGAAGTCATTGACAGCCCGGAGAAGCTCTAC
CTCGTAATGGAGTACGCCCATGGAGGTGATCTCCTGCACTACCTGATGGCCCATGGCCCTCTCTCGGAAGAGGAGGCCCG
AGCAAAATTTCGCCAAGTCTTATCTGCTGTGCAGTACTGTCACCAGAAGTGTATCTCGCACAGAGACTTAAAAGCAGACA
ACCTCCTCTTGGATGCTGCTGGGAATGTGAAAGTTACTGATTTCGGATTAAGTAACACCTTTGACATCAGCCAGCAGCTG
GAAACCCTGTGCGGCACTCCCTGTTATACTGCCCCCGAAATATTTAAGGGGCACACGTACCTTGGGCCGGCCGTGGACGT
CTGGAGCCTGGGGGTGATTCTCTACAACATGGTCAGCGGGAAGTTCCCTTTCTTTGCACAGAGCTCCAAGCTCCTGCAGG
AGCGGGTGCTCAGCGGGGAGTTCCGCATCCCACACTACCTGTCTGTGGACTGCAGGAATCTCCTCCCAAAAGTGCTGACA
GTGGATCCCTGTAGGAGGTCAAGCCTCCCAGACATAATGACTGACCCGTGGGTCAATACGGGCTATGAGCACGCACAACT
GAGGCCGTATGTGGAGCCCCTCCCAGCTCGCCAGGACCCCCACCGGATAGCAGCGATGGTAGCCATGGGCTACAAAGAGG
AGGAGATACAGGCGTCCTTGCAAGATGACAGACATGATGAAGTCATGGCCATATATCTTTTGCTGGGCCACAGCAGATGG
GAGCAGGAGACCTCCACCAGCGCCCCGCAGACCCAGCCCCCTGCCATGCCAGGAGTGGGAGGAGCCCACCTCTGTGCCCT
CCCACCACAGCCTGCCCCCTGCCCTGGTCCACCCTGCAGCTCTCCTCCCCTGCAGAGGACCATCCTCAGTCAGGCCGTCA
TGGACAAGGGCCGGGAGAGCCAGCGCATGCCAGAGCCAGGAGCCTCCAAGACGTCGGCTTCCCCCACAGGGCCCCTGGCC
CTGCCT
ORF - retro_dnov_2056 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 54.09 % |
| Parental protein coverage: | 53.81 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | EQPHIGNYRLLKTIGKGNFAKVKLARHILTGKEVAVKIIDKTQLNSSSLQKLFREVRIMKVLNHPNIVKL |
| ...H..NY..L...GKG.F....LARH.LT..EVAVKII.K.....SSL....REV.IMK.L.HPNIV.L | |
| Retrocopy | KETHLKNYQFLRLLGKGGFSMTFLARHVLTRHEVAVKIIHKKD-SPSSLRMRSREVSIMKSLHHPNIVQL |
| Parental | FEVIETEKTLYLVMEYASGGEVFDYLVAHGRMKEKEARAKFRQIVSAVQYCHQKFIVHRDLKAENLLLDA |
| FEVI.....LYLVMEYA.GG....YL.AHG...E.EARAKFRQ..SAVQYCHQK.I.HRDLKA.NLLLDA | |
| Retrocopy | FEVIDSPEKLYLVMEYAHGGDLLHYLMAHGPLSEEEARAKFRQVLSAVQYCHQKCISHRDLKADNLLLDA |
| Parental | DMNIKIADFGFSNEFTFGNKLDTFCGSPPYAAPELFQGKKYDGPEVDVWSLGVILYTLVSGSLPFDGQNL |
| ..N.K..DFG.SN.F.....L.T.CG.P.Y.APE.F.G..Y.GP.VDVWSLGVILY..VSG..PF..Q.. | |
| Retrocopy | AGNVKVTDFGLSNTFDISQQLETLCGTPCYTAPEIFKGHTYLGPAVDVWSLGVILYNMVSGKFPFFAQSS |
| Parental | KDLWRQELNEEY-IPVYLSVDCVNLILKFLSIDPCKRTILQHIMHNPWVNVDYEHQELKPNVEPLVDYQD |
| K.L....L..E..IP.YLSVDC.NL..K.L..DPC.R..L..IM..PWVN..YEH..L.P.VEPL...QD | |
| Retrocopy | KLLQERVLSGEFRIPHYLSVDCRNLLPKVLTVDPCRRSSLPDIMTDPWVNTGYEHAQLRPYVEPLPARQD |
| Parental | SHWIAMMVTMGYTMEEVKESLANVKHDLIMATYLVLGYSRWEQETSTIVLQPQP--SPGQRHCH----PP |
| .H.IA.MV.MGY..EE...SL....HD..MA.YL.LG.SRWEQETST...Q.QP...PG....H....PP | |
| Retrocopy | PHRIAAMVAMGYKEEEIQASLQDDRHDEVMAIYLLLGHSRWEQETSTSAPQTQPPAMPGVGGAHLCALPP |
| Parental | SPHPVEQHSMSSQPRQR-YSESAVLPSDSLFKTITEKDNSGRKASMTNTYARP |
| .P.P......SS.P.QR.....AV...........E...S...AS.T...A.P | |
| Retrocopy | QPAPCPGPPCSSPPLQRTILSQAVMDKGRESQRMPEPGASKTSASPTGPLALP |
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 | 51 .53 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 24 .33 RPM |
| SRP012922_heart | 0 .00 RPM | 8 .35 RPM |
| SRP012922_kidney | 0 .00 RPM | 15 .06 RPM |
| SRP012922_liver | 0 .62 RPM | 8 .82 RPM |
| SRP012922_lung | 0 .15 RPM | 23 .98 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 7 .96 RPM |
| SRP012922_spleen | 0 .46 RPM | 24 .95 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_2056 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 12 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000002037 | 8 retrocopies |
retro_dnov_1284, retro_dnov_1619, retro_dnov_1691, retro_dnov_2056 , retro_dnov_2323, retro_dnov_2353, retro_dnov_341, retro_dnov_738,
|
| Dasypus novemcinctus | ENSDNOG00000015734 | 1 retrocopy | |
| Tarsius syrichta | ENSTSYG00000000032 | 3 retrocopies |