RetrogeneDB ID: | retro_dnov_1663 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_2589:78500..79516(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RDX | ||
| Ensembl ID: | ENSDNOG00000019413 | ||
| Aliases: | None | ||
| Description: | radixin [Source:HGNC Symbol;Acc:9944] |
Retrocopy-Parental alignment summary:
>retro_dnov_1663
GAAATAAAAAATAAATAGGGAATTGAATTGTTGTTAAGCATTGACGCTTTGGGTCTGAATATTTATGAGCATGATAACAG
GGTAACATCTAAAATTGATTTTCCCTGGAGTGAAATCAGAAATACTTCATTTAATGACCAAAAAAAAAAAATTGTTATAA
AACCATTTGACAAAAGGCACCTGATTTTGTTTTTTATGCAGCTTGTCTGAGAATAAGTGTATTTTGGCTTTATGTATGGG
AAGCCATGAGCTGTATATGCAAAGATGGAAGCTTAATACTTTTGAAGTACAACAGATGAAAGTTCAGGCTAGGGAAAAGT
TGTCAGAAGCAGTTGGAAAAGGGCACAGCTAGAGAATGAAACTGATAAGAAATAGCCGGAAAAGAAAAGGAAAGAATAGA
ACATGAAAAGGAAGAACTAATGGATCATCTAAGGCACATTGAAGAGCTGACAATGAAAATCCAGAAAGAACTAGAAAAAC
AGATTCACAAAGCTCTTGAGCTGGACTGGACTCAGAAATGAGCCAAAGAAGCAGAATGACTTGAAACGGAGCATTGAGCT
GCTTAAGAGGCCAAGTCTGCAATAGCAAAACAGGCTGCTGAAAAGATGAAGAATCAAGAACAGCTAGCAGCAGAACTTGC
CGAATTCACTGCCAAGACTGCACTTCTAGAAGAAGCCAAGAAGAAAAAGGCAGAGAAAGCTACTAAATGGCAAAACAAAG
CTTTTGCAACCCAGGAGGACTCGGAAAAGACCAAAAAAAGAGTTAAAAACCATGATGTCTGCCTTGCACACTCCACCGCT
GCTACCACTAGTCATTTCTCCAACAGAAAATGAGCATAATGAACATATTGAGAAGAGTAGGCAGGCAAGAGCTGAATTAT
CAAATGAAGGGGCGATGAAACATTGAAGTGAGGAAGAACATGTAACAGAAACACAGACAAATGAGCATATTAAGGAACAA
ATCCAGACATAAGTTCAAAATTTACCTGAGCCAAGGATGAAACCAAGAAAACAGAG
ORF - retro_dnov_1663 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 67.34 % |
| Parental protein coverage: | 56.29 % |
| Number of stop codons detected: | 8 |
| Number of frameshifts detected: | 6 |
Retrocopy - Parental Gene Alignment:
| Parental | EIKNKKGTELWLGVDALGLNIYEHDDKLTPKIGFPWSEIRNISFNDKKF--VIKPIDK-KAPD-FVFYAP |
| EIKNK.G.EL.L..DALGLNIYEHD...T.KI.FPWSEIRN.SFND.....VIKP.DK.KAPD.F.F... | |
| Retrocopy | EIKNK*GIELLLSIDALGLNIYEHDNRVTSKIDFPWSEIRNTSFNDXXXXXVIKPFDK<KAPD<FCFLCS |
| Parental | RLRINKRILALCMGNHELYMRRRKPDTIEVQQMKAQAREEKHQ-KQFGRAQLENEKKKREIAEKEK-ERI |
| .L..NK.ILALCMG.HELYM.R.K..T.EVQQMK.QARE.........RAQLENE..K....EK...ERI | |
| Retrocopy | -LSENKCILALCMGSHELYMQRWKLNTFEVQQMKVQAREKLSE<SSWKRAQLENETDKK-*PEKKR<ERI |
| Parental | EREKEELMERLRQIEEQTMKAQKELEEQTRKALELDQERKRAKEEAERLEKERRAAEEAKSAIAKQAADQ |
| E.EKEELM..LR.IEE.TMK.QKELE.Q..KALELD...K.AK.EAE.LE.E..AA.EAKSAIAKQAA.. | |
| Retrocopy | EHEKEELMDHLRHIEELTMKIQKELEKQIHKALELDWTQK*AK-EAE*LETEH*AA*EAKSAIAKQAAEK |
| Parental | MKNQEQLAAELAEFTAKIALLEEAKKKKEEEATEWQHKAFAAQEDLEKT-KEELKTVMSA-PPPPPPPPV |
| MKNQEQLAAELAEFTAK.ALLEEAKKKK.E.AT.WQ.KAFA.QED.EKT.K.ELKT.MSA...PP..P.V | |
| Retrocopy | MKNQEQLAAELAEFTAKTALLEEAKKKKAEKATKWQNKAFATQEDSEKT>KKELKTMMSALHTPPLLPLV |
| Parental | IPPTENEHDEHDENNAQASAELSNEGVMNHRSEEERVTETQKNERVKKQLQA-LSSELAQARDETKKTQ |
| I.PTENEH.EH.E...QA.AELSNEG.M.H.SEEE.VTETQ.NE..K.Q.Q...SS....A.DETKKT. | |
| Retrocopy | ISPTENEHNEHIEKSRQARAELSNEGAMKH*SEEEHVTETQTNEHIKEQIQT<ISSKFT*AKDETKKTE |
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 | 46 .67 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 83 .03 RPM |
| SRP012922_heart | 0 .00 RPM | 76 .80 RPM |
| SRP012922_kidney | 0 .00 RPM | 173 .86 RPM |
| SRP012922_liver | 0 .00 RPM | 54 .80 RPM |
| SRP012922_lung | 0 .00 RPM | 337 .67 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 110 .43 RPM |
| SRP012922_spleen | 0 .00 RPM | 162 .88 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_1663 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 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000019413 | 1 retrocopy |
retro_dnov_1663 ,
|
| Homo sapiens | ENSG00000137710 | 1 retrocopy | |
| Gorilla gorilla | ENSGGOG00000027218 | 1 retrocopy | |
| Pan troglodytes | ENSPTRG00000004259 | 1 retrocopy |