RetrogeneDB ID: | retro_dnov_2451 | ||
Retrocopylocation | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_75987:3405..4000(-) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | TMEM185A | ||
| Ensembl ID: | ENSDNOG00000011864 | ||
| Aliases: | None | ||
| Description: | transmembrane protein 185A [Source:HGNC Symbol;Acc:17125] |
Retrocopy-Parental alignment summary:
>retro_dnov_2451
GAGAGTGAGGCCTGCAGTGGAGGTCAAGGTCATGCTGATCGCCCAGGGTATCCACCTGCTGCTGCTCTTGTTGGAGGTGC
TAGTCTGCGACCGGGTGGAACGGGGTTCCCACTTCTGGCTGCTGGTCTTCCTGCCGCTCTACTTGTCGCCCCTGGCGGTG
GCCGCCTCCATCTGCGGCTCCCAGCGCTACCGGTCGCTGGAGCTGGAGCTGCTGTGCTCCATCAACATCCTGCAGATCAC
CTTCATTGCCCTTAGGCTGGACAGGATCGTGCACTGGCCCTGGCTGGTGATGTGCGTGCCCCTGTGGATCTGATTCTCGT
CGATCCTCTGCCTGGTGGTCCTTTACTACGTTGTCTGGTCCCTGCTGTGCCTGCGCTCCTTGGACAAGGGGAGCAAGCAA
TGCAGGGCGTATGTGACTATGGCCCTGAGCTGGGTCTCTATCTTGGGTGCCGCTCCTGCTCCTCATCTACGAGGTCCTGC
TGGTGCACAGACTGGACTGCCACAGAGTGTTCTCCTAACGTCTGTCTTCGTTCCGCTCTGGCTGTCCCTGGCAACTTTGA
TAGCCACGATGTTCAGGTAGAAGGGCGACAATCAT
GAGAGTGAGGCCTGCAGTGGAGGTCAAGGTCATGCTGATCGCCCAGGGTATCCACCTGCTGCTGCTCTTGTTGGAGGTGC
TAGTCTGCGACCGGGTGGAACGGGGTTCCCACTTCTGGCTGCTGGTCTTCCTGCCGCTCTACTTGTCGCCCCTGGCGGTG
GCCGCCTCCATCTGCGGCTCCCAGCGCTACCGGTCGCTGGAGCTGGAGCTGCTGTGCTCCATCAACATCCTGCAGATCAC
CTTCATTGCCCTTAGGCTGGACAGGATCGTGCACTGGCCCTGGCTGGTGATGTGCGTGCCCCTGTGGATCTGATTCTCGT
CGATCCTCTGCCTGGTGGTCCTTTACTACGTTGTCTGGTCCCTGCTGTGCCTGCGCTCCTTGGACAAGGGGAGCAAGCAA
TGCAGGGCGTATGTGACTATGGCCCTGAGCTGGGTCTCTATCTTGGGTGCCGCTCCTGCTCCTCATCTACGAGGTCCTGC
TGGTGCACAGACTGGACTGCCACAGAGTGTTCTCCTAACGTCTGTCTTCGTTCCGCTCTGGCTGTCCCTGGCAACTTTGA
TAGCCACGATGTTCAGGTAGAAGGGCGACAATCAT
ORF - retro_dnov_2451 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 65.84 % |
| Parental protein coverage: | 72.86 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | EGETC-VEFKAMLIAVGIHLLLLMFEVLVCDRIERGSHFWLLVFMPLFFVSPVSVAACVWGFRHDRSLEL |
| E.E.C.VE.K.MLIA.GIHLLLL..EVLVCDR.ERGSHFWLLVF.PL...SP..VAA...G....RSLEL | |
| Retrocopy | ESEAC>VEVKVMLIAQGIHLLLLLLEVLVCDRVERGSHFWLLVFLPLY-LSPLAVAASICGSQRYRSLEL |
| Parental | EILCSVNILQFIFIALRLDKIIHWPWLVVCVPLWI-LMSFLCLVVLYYIVWSVLFLRSMDVIAEQRRTHI |
| E.LCS.NILQ..FIALRLD.I.HWPWLV.CVPLWI...S.LCLVVLYY.VWS.L.LRS.D....Q.R... | |
| Retrocopy | ELLCSINILQITFIALRLDRIVHWPWLVMCVPLWI*FSSILCLVVLYYVVWSLLCLRSLDKGSKQCRAYV |
| Parental | TMALSWMTIV-VP--LLTFEILLVHKLDGHNAFS-CIPIFVPLWLSLITLMATTFGQKGGNH |
| TMALSW..I..VP..LL..E.LLVH.LD.H..FS.....FVPLWLSL.TL.AT.F..KG.NH | |
| Retrocopy | TMALSWVSIL>VPLLLLIYEVLLVHRLDCHRVFS<LTSVFVPLWLSLATLIATMFR*KGDNH |
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 | 1 .56 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 5 .64 RPM |
| SRP012922_heart | 0 .00 RPM | 0 .70 RPM |
| SRP012922_kidney | 0 .00 RPM | 1 .10 RPM |
| SRP012922_liver | 0 .00 RPM | 0 .77 RPM |
| SRP012922_lung | 0 .00 RPM | 2 .60 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 0 .87 RPM |
| SRP012922_spleen | 0 .00 RPM | 4 .01 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_2451 was not experimentally validated.