RetrogeneDB ID: retro_mmur_795

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_893:120342..121592(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TCP1
• Ensembl ID: ENSMICG00000007998
• Aliases: None
• Description: t-complex 1 [Source:HGNC Symbol;Acc:11655]

Sequence

>retro_mmur_795
ATGGAAGGGCCTTTGTCCGTGTTCGGGGACCGCAGCACTGGGGAGGCAATCCACTCCCAGAACGTTATGGCTGCAGCTTC
TATTGCTAACATCGTGAAAAGTTCTCTTGGTCCAGTTGGCTTGGATAAAATGTTGGTGGATGATATTGGTGATGTAACCA
TTACTAATGATGGAGCAACCATCCTGAAATTACTGGAGGTGGAACATCCTGCAGCCAAAGTTCTTTGTGAGCTGGCTGAT
CTGCAAGACAAAGAAGTTGGAGATGGTACTACTTCAGTGGTTATTATTGCAGCAGAGCTTCTAAAAAATGCAGATGAACT
AGTCAAACAGAAAATTCATCCCACATCAGTTATTAGTGGCTATCGACTTGCTTGCAAGGAAGCAGTACGTTATATCAGTG
AAAACCTGATTATAACACAGACGAACTTGGAAGAGATTGCCTGACTAATGCTGCTAAGACATCGATGTCGTCCAAAATCA
TGGAATAAATGGTGAATTCTTTGCTAATATGGTAGTAGATGCTGTATGGATTCAGTACACAGATACAAGAGGACAGCCCC
GATATCCAGTCAAATCTGTTAATATTCTGAAAGCTCACGGGAGAAGTCAGACGGAGAGTATGCTGATCAGTGGCTATGCA
CTCAACTGTGTGGTGGGATCCCAGGGTAAGCCCAAGAGGATAGTTAATGCAAAAATTGCTTGCCTTGACTTCAGCCTGCA
AAAAACAAAAATGAAACTTGGTGTACAGGTGGTTATTACGGATCCTGAAAAATTGGACCAAATTAGACAGAGAGAATCAG
ATATCACCAAGGAAAGAATTCAGAAGATCCTGGCAACTGGTGCCAATGTTATTCTAACCACTGGTGGAATTGATGATATG
TATCTGAAGTATTTTGTGGAGGCTGGTGCTATGGCAGTTCGAAGAGTTTTAAAAAGGGACCTTAAACGCATTGCTAAAGC
TTCTGGAGCAACTATTCTGTCAACCCTGGCCAATTTGGAAGGTGAAGAAACTTTTGAAGCTGCAATGTTGGGACAAGCAG
AAGAGGTGGTACAGGAGAGAATTTGTGATGATGAACTGATCTTAATCAAAAACACCAAAGCTCGTACGTCTGCATCAATT
ATCTTACGTGGGGCAAATGATTTCATGTGTGATGAAATGGAGCACTCTTTACATGATGCTCTTTGTGTAGTGAAGAGAGT
TTTGGAGTCAAAATCCGTGGATTCCAGGTGGGGGTGCTGTAGAAGCGGCC

Alignment

ORF - retro_mmur_795 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.43 %
• Parental protein coverage: 75. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MEGPLSVFGDRSTGEAIRSQNVMAAASIANIVKSSLGPVGLDKMLVDDIGDVTITNDGATILKLLEVEHP
          MEGPLSVFGDRSTGEAI.SQNVMAAASIANIVKSSLGPVGLDKMLVDDIGDVTITNDGATILKLLEVEHP
Retrocopy MEGPLSVFGDRSTGEAIHSQNVMAAASIANIVKSSLGPVGLDKMLVDDIGDVTITNDGATILKLLEVEHP

Parental  AAKVLCELADLQDKEVGDGTTSVVIIAAELLKNADELVKQKIHPTSVISGYRLACKEAVRYISENLII-N
          AAKVLCELADLQDKEVGDGTTSVVIIAAELLKNADELVKQKIHPTSVISGYRLACKEAVRYISENLII.N
Retrocopy AAKVLCELADLQDKEVGDGTTSVVIIAAELLKNADELVKQKIHPTSVISGYRLACKEAVRYISENLII<N

Parental  TDELGRDCLTNAAKTSMSSKII-GINGEFFANMVVDAVAV-YTDTRGQ-RYPVNSV-ILKAHGRSQTESM
          TDELGRDCLTNAAKTSMSSKI..GINGEFFANMVVDAV...YTDTRGQ.RYPV.SV.ILKAHGRSQTESM
Retrocopy TDELGRDCLTNAAKTSMSSKIM<GINGEFFANMVVDAVWIQYTDTRGQPRYPVKSVNILKAHGRSQTESM

Parental  LISGYALNCVVGSQGMPKRIVNAKIACLDFSLQKTKMKLGVQVVITDPEKLDQIRQRESDITKERIQKIL
          LISGYALNCVVGSQG.PKRIVNAKIACLDFSLQKTKMKLGVQVVITDPEKLDQIRQRESDITKERIQKIL
Retrocopy LISGYALNCVVGSQGKPKRIVNAKIACLDFSLQKTKMKLGVQVVITDPEKLDQIRQRESDITKERIQKIL

Parental  ATGANVILTTGGIDDMCLKYFVEAGAMAVRRVLKRDLKRIAKASGATILSTLANLEGEETFEAAMLGQAE
          ATGANVILTTGGIDDM.LKYFVEAGAMAVRRVLKRDLKRIAKASGATILSTLANLEGEETFEAAMLGQAE
Retrocopy ATGANVILTTGGIDDMYLKYFVEAGAMAVRRVLKRDLKRIAKASGATILSTLANLEGEETFEAAMLGQAE

Parental  EVVQERICDDELILIKNTKARTSASIILRGANDFMCDEMERSLHDALCVVKRVLESKSV-VPGGGAVEAA
          EVVQERICDDELILIKNTKARTSASIILRGANDFMCDEME.SLHDALCVVKRVLESKSV..PGGGAVEAA
Retrocopy EVVQERICDDELILIKNTKARTSASIILRGANDFMCDEMEHSLHDALCVVKRVLESKSV>IPGGGAVEAA

Legend:

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

Expression

RNA-Seq

Microcebus murinus was not studied using RNA-Seq expression data.

ChIP-Seq

Microcebus murinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmur_795 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_795 was not experimentally validated.

Homology

Retrocopy orthology:

Microcebus murinus 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 14 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000015405	1 retrocopy	retro_amel_828,
Callithrix jacchus	ENSCJAG00000011792	2 retrocopies	retro_cjac_1867, retro_cjac_2193,
Equus caballus	ENSECAG00000017953	1 retrocopy	retro_ecab_798,
Homo sapiens	ENSG00000120438	1 retrocopy	retro_hsap_3722,
Gorilla gorilla	ENSGGOG00000014063	1 retrocopy	retro_ggor_2514,
Microcebus murinus	ENSMICG00000007998	1 retrocopy	retro_mmur_795 ,
Macaca mulatta	ENSMMUG00000012846	1 retrocopy	retro_mmul_1696,
Oryctolagus cuniculus	ENSOCUG00000013847	1 retrocopy	retro_ocun_1577,
Pongo abelii	ENSPPYG00000017146	1 retrocopy	retro_pabe_3135,
Pan troglodytes	ENSPTRG00000018760	1 retrocopy	retro_ptro_2617,
Pteropus vampyrus	ENSPVAG00000005316	1 retrocopy	retro_pvam_522,
Sorex araneus	ENSSARG00000002463	1 retrocopy	retro_sara_624,
Sarcophilus harrisii	ENSSHAG00000015128	1 retrocopy	retro_shar_830,
Ictidomys tridecemlineatus	ENSSTOG00000005572	1 retrocopy	retro_itri_1274,