RetrogeneDB ID: | retro_lafr_968 | ||
Retrocopy location | Organism: | Elephant (Loxodonta africana) | |
| Coordinates: | scaffold_53:12459051..12459963(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSLAFG00000012402 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_lafr_968
AACCAGTCAAGTATCTCCGAGTTGCTCCTCCGGGGGCTCTCCAGGCAGCCCCAGCAACAGCAGTTCCTTTTCGTGTTCTT
CCTGAGCATGTACCCGGCCACAGTTCTGGGAAACCTGCTCATCGTTCTGGCCATCAGCACAGACTCCTGCCTGCACACCC
ACATGTACTTCTTCCTCAGTAATCTGTCCCTCGTGGACATCTATTTCTCCTCTACCATCAGCACCAAGATGCTTGCCAAC
CACATACTTGGGGGTTAGACCATCTTCTTCTCTGAGTGTCTCAAGTAGCTGCATTTTCTCATTATGTTTGGCATCACGGA
CGATTTCCTCCTGGCTGTGGTGGCCTATGGCCACTTTGTTGCTGTGTGCCACCCCTTACACTACACAATAAAGATGACCC
CTTGGCTCTGTGCCCTGCTGGTCATTGGGCTGTGGGTCATTGCCATTGTGAATGCTCTGTTGCATACCCTGCTGATGGCT
CTACTCTCGTTCTGTGCAGACTACATGATCCCCCACTTCTGTGATGTGACTTCTCTCCTGAGACTCCTGCTCTGACACTT
ACCTCAGTGAGATGATGATTCTTACTGCGGGGGCCCTGATAATGATCACCCCGTTTGTTTGCATGCTGATTTCCTACATT
TGCATCACCTGTGCTGTCCTGAGAGTCCCATCCGCGAAGGGAAGTTGGAAAGCCTTTTCCACCTGTTGCTCCCACCTAGC
TGTAGTTTACCTCTATGGCATCATAACTGCTGTGTATTTCAACCCTTCATTTTCCCACTCAGCTGAGAAAGACACCTCAC
CCTCTGTGATGTACACAGTGATGACCCCCATGGCGAGCCCTTTTATCTATAGCCTCAGGAAAAGGACTTGAAAGGGGCCC
TAAGAAAAGTAATTGGCAGGAAGAGGTTTTCT
ORF - retro_lafr_968 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 52.43 % |
| Parental protein coverage: | 98.4 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | NQSSLSEFLLLGLPIRPEQQDMFFALFLGMYLTTVLGNLLIILLIRLDSRLHTPMYFFLSHLALTDISFS |
| NQSS.SE.LL.GL...P.QQ...F..FL.MY..TVLGNLLI.L.I..DS.LHT.MYFFLS.L.L.DI.FS | |
| Retrocopy | NQSSISELLLRGLSRQPQQQQFLFVFFLSMYPATVLGNLLIVLAISTDSCLHTHMYFFLSNLSLVDIYFS |
| Parental | SVIAPKMLMNMQTQNQSISYAGCISQVYFYIFFADIDSFLLTSMAYDRYMAVCHPLHYTTIMSQSLCFWL |
| S.I..KML.N.......I....C.....F.I.F...D.FLL...AY....AVCHPLHYT..M...LC..L | |
| Retrocopy | STISTKMLANHILGG*TIFFSECLK*LHFLIMFGITDDFLLAVVAYGHFVAVCHPLHYTIKMTPWLCALL |
| Parental | VIVSWVLSFGNALLHTLLLAHLSFLRNNTIPHFFCDLSALLKL-SSSDTSTNKLAILIVGVMVITLPFIC |
| VI..WV....NALLHTLL.A.LSF.....IPH.FCD...LL.L..S.................IT.PF.C | |
| Retrocopy | VIGLWVIAIVNALLHTLLMALLSFCADYMIPH-FCDVTSLLRL>CSDTYLSEMMILTAGALIMIT-PFVC |
| Parental | ILVSYGCIGSTILRVPSTKGICKALSTCGSHLSVVSLYYGAIIGLYFFPSFRNSNDKDVIVAILYTVVTP |
| .L.SY.CI....LRVPS.KG..KA.STC.SHL.VV.L.YG.I...YF.PSF..S..KD......YTV.TP | |
| Retrocopy | MLISYICITCAVLRVPSAKGSWKAFSTCCSHLAVVYL-YGIITAVYFNPSFSHSAEKDTSPSVMYTVMTP |
| Parental | MLNPFIYSLRNR-DMKGALGNILKRRTFS |
| M..PFIYSLR.R.D.KGAL.....R..FS | |
| Retrocopy | MASPFIYSLRKR<DLKGALRKVIGRKRFS |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Loxodonta africana was not studied using RNA-Seq expression data.
Loxodonta africana was not studied using ChIP-Seq data.
Loxodonta africana was not studied using EST data.
Loxodonta africana was not studied using FANTOM5 data.
retro_lafr_968 was not experimentally validated.
Retrocopy orthology:
Loxodonta africana 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 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Loxodonta africana | ENSLAFG00000012402 | 1 retrocopy |
retro_lafr_968 ,
|