RetrogeneDB ID: | retro_dnov_2323 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_64031:2567..3846(+) | ||
| 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_2323
GCAGCCATGAGTGCTGAGGAGGAGACCCACCTCAAGAACTATCGGTTCCTGAGAACTATAGGAAAGGGGGCCTTTTCCAT
GATAAAATTAGCACGACACATCCTCACCAGCCATGAGGTGGCTGTGAAAATCATACAGAAAGATGAAGACTCCAGCAGCT
CCTCATGCTCTCCAGAGAGGTCAGCAAAATGAAGATGTTGAGCCATCCTCAAAATCATCCAGTTCTTTGAAATTATTGAG
AACAAGGAATTCTACCTCATGATGGAGTATGCCAGTGGAGGTGATCTCTTTAACTACCTGGTAGCCCAGGGCCCTCTGTT
AGAACAGGAAGCCCAAGGGAAATTTCACCAAGTTATATCTGCCATCCAGTACTGTTACCGGAAATTTATTTCCCACAGGG
ACTTGAAAGCAGATAACTTGCTTTTGGATGCTGCTGTGAATGTCAAACTTGCTGATTTTGGCTTGAGTAATATATTTACC
ATCGACCAGTAGCTGACAACCCTGTGTGGCACTCCCTATTATACTGCCCCTGAAATATTTAAGGAGCACACATATGATGG
GCCTGCTGTCGATGTCTAGAGGCTGGGGGTAATTCTATACACCATGGCCAGCGGGGATCTCCCATTTGCTGCCAGAGCTT
CCAGGCCCTGTGGGAGCAGGTGCTCAGTCGGGAGCTCCCCATTCCAGACCACCTGGCTGTGGATTGTAGGAATCTCCTCA
GAAAGTGCGTTACAGTGGATCCCTGTAAGAGGACAGGCTGCCAGAATGTGATGAGCAACCCATGAGTAAGTACGGACTGT
GAGCACAAAGAATTGAAGGCATATGTGGAGCCCCTCCCAGATTGCCAGGATCCCCACCAGACAGCAATGATAGTTACCAT
GGGCTACAAAATGGAAGAGATACAGGAGTCCTTGAGAGATGTGAAACATGACGAGATCATGGCCGTCTATCTCTTGCTGG
GCCACAGCAGATGGGAGCAGGAGACCTCCACCAGCGCCCAGCAGAACCAGCCCTCACATGGCCAGAGGCACAGCCGCCCT
CCTTCCCCACACCACATGGAGCAGCACAGCATGTCTGCCCAGCCCAGGCAGCAAAGAGGCAGCGAACCTGCCTTCTCCCC
CCTGATTGCTTGTCTACAGTCCTTCAACACAGGGAGAAGGACCAGAATTCAGGGAGGGAGGCTTGGAGCCTGAGCAACAC
ATATGCCAGCCCCCTGCCAGACCAGGAGTGGGAGAAGCCCACCTCTGTGCTCTCCCACCAGAGATCCCCGCCGTCCCAG
ORF - retro_dnov_2323 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 60.51 % |
| Parental protein coverage: | 58.34 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | SATSADEQPHIGNYRLLKTIGKGNFAKVKLARHILTGKEVAVKIIDKTQLNSSS-LQKLFREVRIMKVLN |
| .A.SA.E..H..NYR.L.TIGKG.F...KLARHILT..EVAVKII.K....SSS.L..L.REV..MK.L. | |
| Retrocopy | AAMSAEEETHLKNYRFLRTIGKGAFSMIKLARHILTSHEVAVKIIQKDE-DSSS<LLMLSREVSKMKMLS |
| Parental | HPN-IVKLFEVIETEKTLYLVMEYASGGEVFDYLVAHGRMKEKEARAKFRQIVSAVQYCHQKFIVHRDLK |
| HP..I...FE.IE..K..YL.MEYASGG..F.YLVA.G...E.EA..KF.Q..SA.QYC..KFI.HRDLK | |
| Retrocopy | HPQ>IIQFFEIIEN-KEFYLMMEYASGGDLFNYLVAQGPLLEQEAQGKFHQVISAIQYCYRKFISHRDLK |
| Parental | AENLLLDADMNIKIADFGFSNEFTFGNKLDTFCGSPPYAAPELFQGKKYDGPEVDVWSLGVILYTLVSGS |
| A.NLLLDA..N.K.ADFG.SN.FT....L.T.CG.P.Y.APE.F....YDGP.VDV..LGVILYT..SG. | |
| Retrocopy | ADNLLLDAAVNVKLADFGLSNIFTIDQ*LTTLCGTPYYTAPEIFKEHTYDGPAVDV*RLGVILYTMASGD |
| Parental | LPFDG-QNLKDLWRQELNEEY-IPVYLSVDCVNLILKFLSIDPCKRTILQHIMHNPWVNVDYEHQELKPN |
| LPF...Q....LW.Q.L..E..IP..L.VDC.NL..K....DPCKRT..Q..M.NP.V..D.EH.ELK.. | |
| Retrocopy | LPFAA<QSFQALWEQVLSRELPIPDHLAVDCRNLLRKCVTVDPCKRTGCQNVMSNP*VSTDCEHKELKAY |
| Parental | VEPLVDYQDSHWIAMMVTMGYTMEEVKESLANVKHDLIMATYLVLGYSRWEQETSTIVLQPQPSPGQRHC |
| VEPL.D.QD.H..AM.VTMGY.MEE..ESL..VKHD.IMA.YL.LG.SRWEQETST...Q.QPS.GQRH. | |
| Retrocopy | VEPLPDCQDPHQTAMIVTMGYKMEEIQESLRDVKHDEIMAVYLLLGHSRWEQETSTSAQQNQPSHGQRHS |
| Parental | HPPSPHPVEQHSMSSQPR-QRYSESA-VLPSDSLFKTI--TEKD-NSGRKA-SMTNTYARPLPDKEWEKP |
| .PPSPH..EQHSMS.QPR.QR.SE.A..LP.D.L.......EKD.NSGR.A.S..NTYA.PLPD.EWEKP | |
| Retrocopy | RPPSPHHMEQHSMSAQPRQQRGSEPA<LLPPDCLSTVLQHREKDQNSGREAWSLSNTYASPLPDQEWEKP |
| Parental | ISVPSHSFPTTSQ |
| .SV.SH.....SQ | |
| Retrocopy | TSVLSHQRSPPSQ |
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 .00 RPM | 8 .82 RPM |
| SRP012922_lung | 0 .00 RPM | 23 .98 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 7 .96 RPM |
| SRP012922_spleen | 0 .00 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_2323 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 |