RetrogeneDB ID: retro_tsyr_1899

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_64692:2892..3722(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: MTFR1
• Ensembl ID: ENSTSYG00000010102
• Aliases: None
• Description: mitochondrial fission regulator 1 [Source:HGNC Symbol;Acc:29510]

Sequence

>retro_tsyr_1899
ACCAGCTAGGCAACAGAACGGAGCCCCAGCTACCCAGGAGAGGATGCAGTGGCGTCTTTTGCTGATGTTGGATGGGCAGC
CACAGAAGAAGGAGAGTGTTCAACAAGATTGAGAACAAAGGTCAGGTCAAGGTTACCCCTTGAGAATGACCTTCCTTTCT
TTGAGAAGCCCCTAAGTAGACAGATTTCCTTACCAGACTTGTCTCAAGAAGAGCCTCAGCTGAAGACTACAGTGCTGGCA
AATGAGGAAGCCCTGCAGAAGATCAGTGCTCTTGAAAATGAACCTGCTGCTCTTAGAGCTTAGATTGCCAAAATTGTGAC
CCCGCAAGAGCAGCAAAATTTCATTGCAGGTGACTTCAACTCTGCCATATCTGTTACCACACCATCACCCCCTCAGCCTC
CCCCACCACCCCTGCTCCCCCTCCACCAGGGCTTCACCAAAGTAAATATGCTATTGATCTGATTAAAGAACGGAGAGAGA
AAAAAGCCAGTGCTGGAAAGACTTTGGTTAAGAACAATCCAAAGAAGCCTGACATGCCAAATATGCTAGAGAGCCTTAAA
GGTATGAACAGTGTAAAACTTCGATCAGTAAAGAGGTCAGAACAAGATGTAAAACCCAAGCCAGTGGATGCTACTGACCC
TGCTGCCCTCATAGCAGAGGCTCTGAAAAAGAAATTTGCTTATCCATATCGAAGTGATAGCCAAGATGAAGTTGAAAAAG
GAGTTCCAAAGTCTGAATCAGAGGCTACCTCAGAGACAGTGTTGTTTGGGCCACACATGTTGAAGACAACAGGAAAAATG
AAGGCTTTAATTGAAAATGTATCAAACTCC

Alignment

ORF - retro_tsyr_1899 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.01 %
• Parental protein coverage: 83.18 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TSHATERSPSHPGEDAVATFADVGWVATEGGECSARVRTKVRSRLPLEDDLPFFEKPLSRQISLPDLSQE
          TS.ATERSPS.PGEDAVA.FADVGW.ATE.GECS.R.RTKVRSRLPLE.DLPFFEKPLSRQISLPDLSQE
Retrocopy TS*ATERSPSYPGEDAVASFADVGWAATEEGECSTRLRTKVRSRLPLENDLPFFEKPLSRQISLPDLSQE

Parental  EPQLKTTALANEEALQKICALENELAALRAQIAKIVTQQEQQNFTAGDFNSATSVPTPSPPPPPPPPL-P
          EPQLKTT.LANEEALQKI.ALENE.AALRA.IAKIVT.QEQQNF.AGDFNSA.SV.TPSPP.PPPPPL..
Retrocopy EPQLKTTVLANEEALQKISALENEPAALRA*IAKIVTPQEQQNFIAGDFNSAISVTTPSPPQPPPPPL<A

Parental  PPPPGLHQSISAIDLIKERREKKASAGKTLVKNNPKKPDMPNMLEILKDMNSVKLRSVKRSEQDVKPKPV
          PPPPGLHQS..AIDLIKERREKKASAGKTLVKNNPKKPDMPNMLE.LK.MNSVKLRSVKRSEQDVKPKPV
Retrocopy PPPPGLHQSKYAIDLIKERREKKASAGKTLVKNNPKKPDMPNMLESLKGMNSVKLRSVKRSEQDVKPKPV

Parental  DATDPAALIAEALKKKFAYRYRSDSQDEVEKGVPKSESEATSETVLFGPHMLKTTGKMKALIENVSNA
          DATDPAALIAEALKKKFAY.YRSDSQDEVEKGVPKSESEATSETVLFGPHMLKTTGKMKALIENVSN.
Retrocopy DATDPAALIAEALKKKFAYPYRSDSQDEVEKGVPKSESEATSETVLFGPHMLKTTGKMKALIENVSNS

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tarsius syrichta was not studied using RNA-Seq expression data.

ChIP-Seq

Tarsius syrichta was not studied using ChIP-Seq data.

EST

Tarsius syrichta was not studied using EST data.

TSS

Tarsius syrichta was not studied using FANTOM5 data.

Lab

retro_tsyr_1899 was not experimentally validated.

Homology

Retrocopy orthology:

Tarsius syrichta 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.

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000012281	1 retrocopy	retro_amel_1640,
Choloepus hoffmanni	ENSCHOG00000006664	3 retrocopies	retro_chof_1268, retro_chof_2700, retro_chof_483,
Dipodomys ordii	ENSDORG00000016322	1 retrocopy	retro_dord_293,
Homo sapiens	ENSG00000066855	1 retrocopy	retro_hsap_4849,
Macaca mulatta	ENSMMUG00000011263	1 retrocopy	retro_mmul_2590,
Mustela putorius furo	ENSMPUG00000009909	2 retrocopies	retro_mputfur_1244, retro_mputfur_894,
Oryctolagus cuniculus	ENSOCUG00000008165	1 retrocopy	retro_ocun_1594,
Pongo abelii	ENSPPYG00000018631	1 retrocopy	retro_pabe_3769,
Rattus norvegicus	ENSRNOG00000021359	1 retrocopy	retro_rnor_1821,
Tarsius syrichta	ENSTSYG00000010102	1 retrocopy	retro_tsyr_1899 ,