RetrogeneDB ID: retro_mmur_602

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_4147:53255..54356(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARPC1B
• Ensembl ID: ENSMICG00000017424
• Aliases: None
• Description: actin related protein 2/3 complex, subunit 1B, 41kDa [Source:HGNC Symbol;Acc:704]

Sequence

>retro_mmur_602
ATGTCCCTGCATCAGTTTTTACTAGAGCCAATCACCCGTCATGCCTGGAACAGGGATCGTACTCAAATTGCCCTTAGCCC
CAATAATCATGAAGTGCACATCTATAAGAAAAATGGGAGCCCGTGGGTGAAAGCTCATGAACTCAAGGAGCACAACGGAC
ACATCACAGGTCTTGACTGGGCTCCCAAGAGCGACCGCATCGTCACTTGTGGGGCAGACCGCAATGCCTGTGTCTGGAGT
CAGAAAGATGGTGTCTGGAAGCCAACCCTGGTGATCCTGAGAATTCATGGTGCAGCCACTTTTGTGAAGTGGTCCCCCCT
AGACAACAAATTTGCTGTGGGAAGTGGAGCACGGCTCATTTCGGTTACTTCGAGTCTGAAAATGACCGGTGGGTAAGCAA
GCACATTAAAAAGCCGGTTCGCTCCACAGTCCTCAGCTTGGATTGGCATCCCAACAATGTTTTGCTGGCAGCAGGATCAT
GTGACTTCAAATGCAGAGTGTTTTCTGCCTGTATTAAAGAAGTGGATGAAAAGCCAGCCAGTACGCCCTGGGGCAGCAGA
TGCCTTTTGGTCAGCTGATGTCAGAGTGTGGGGGCAGCGGCACAGGCGGCTGGGTCCGTGGGGTCAGCTTCTCCGCCAGT
GGGAGCCGCCTGGCCTGGGTCAGTCACGACAGCACCGTATCTGTTGCTGATGCCTCGAAAAGCGTGCAGGTCTCAACTCT
GAAAACAGAATTCCTGCCACTGCTGAGTGTATCGTTTGTCTCCGAGATAGTGTTGTGGCTGCTGGCCATGACTGCTGCCC
AGTGCTCTTTAACTATGACGACCGCAGCTGCTTGACCTTTGTCTCCAAGTTAGACATTCCAAAACAGAGCGTCCAGCGCA
ACATATCTGCCAGGGAACGTTTCCGCACCACGGACAAGAGGGCCACAACCGAAGACCGCAATACAGCCTTGGAGACGCTG
CACCAGAATAGCATCACTCAAGTGTCTATTTATGAGGTGGACAAGCAAGATTGTCGCAAATTTTGCACTACTGGCATCGA
TGGAGCCATGACAATTTGGGATTTCAAGACCTTAGAGTCTTCTATCCAGGGCCTCCGGATA

Alignment

ORF - retro_mmur_602 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.77 %
• Parental protein coverage: 99.73 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MAYHSFLVEPISCHAWNKDRTQIAICPNNHEVHIYEKSGAKWAKVHELKEHNGQVTGIDWAPESNRIVTC
          M..H.FL.EPI..HAWN.DRTQIA..PNNHEVHIY.K.G..W.K.HELKEHNG..TG.DWAP.S.RIVTC
Retrocopy MSLHQFLLEPITRHAWNRDRTQIALSPNNHEVHIYKKNGSPWVKAHELKEHNGHITGLDWAPKSDRIVTC

Parental  GTDRNAYVWTLKGRTWKPTLVILRINRAARCVRWAPNENKFAVGSGSRVISIC-YFEQENDWWVCKHIKK
          G.DRNA.VW..K...WKPTLVILRI..AA..V.W.P..NKFAVGSG.R.IS..........W.V.KHIKK
Retrocopy GADRNACVWSQKDGVWKPTLVILRIHGAATFVKWSPLDNKFAVGSGARLISVT<FESENDRW-VSKHIKK

Parental  PIRSTVLSLDWHPNNVLLAAGSCDFKCRIFSAYIKEVEERPAPTPWGSK-MPFGELMFE--SSSSCGWVH
          P.RSTVLSLDWHPNNVLLAAGSCDFKCR.FSA.IKEV.E.PA.TPWGS..MPFG.LM.E...S...GWV.
Retrocopy PVRSTVLSLDWHPNNVLLAAGSCDFKCRVFSACIKEVDEKPASTPWGSR<MPFGQLMSECGGSGTGGWVR

Parental  GVCFSASGSRMAWVSHDSTVCLADADKKMAVATLASETLPLLALTFITE-NSLVAAGHDCFPVLFTYDGA
          GV.FSASGSR.AWVSHDSTV..ADA.K...V.TL..E.LPLL...F..E..S.VAAGHDC.PVLF.YD..
Retrocopy GVSFSASGSRLAWVSHDSTVSVADASKSVQVSTLKTEFLPLLSVSFVSE<DSVVAAGHDCCPVLFNYDDR

Parental  SGTLSFGGRLDVPKQSSQRGLTARERFQNLDKKASSEGGAAGGAGLDSLHKNSVSQISVLSGGKAKCSQF
          S..L.F...LD.PKQS.QR...ARERF...DK.A..E........L..LH.NS..Q.S.....K..C..F
Retrocopy S-CLTFVSKLDIPKQSVQRNISARERFRTTDKRATTED---RNTALETLHQNSITQVSIYEVDKQDCRKF

Parental  CTTGMDGGMSIWDVKSLESALKDLKI
          CTTG.DG.M.IWD.K.LES....L.I
Retrocopy CTTGIDGAMTIWDFKTLESSIQGLRI

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_602 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_602 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 12 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000046248	2 retrocopies	retro_btau_1547, retro_btau_473,
Canis familiaris	ENSCAFG00000015081	1 retrocopy	retro_cfam_1568,
Callithrix jacchus	ENSCJAG00000015849	1 retrocopy	retro_cjac_2365,
Echinops telfairi	ENSETEG00000009924	2 retrocopies	retro_etel_1076, retro_etel_1275,
Gorilla gorilla	ENSGGOG00000013186	2 retrocopies	retro_ggor_1337, retro_ggor_1455,
Microcebus murinus	ENSMICG00000017424	1 retrocopy	retro_mmur_602 ,
Myotis lucifugus	ENSMLUG00000010933	1 retrocopy	retro_mluc_974,
Mustela putorius furo	ENSMPUG00000016522	1 retrocopy	retro_mputfur_1578,
Mus musculus	ENSMUSG00000029622	2 retrocopies	retro_mmus_1340, retro_mmus_3623,
Otolemur garnettii	ENSOGAG00000010872	2 retrocopies	retro_ogar_2380, retro_ogar_3087,
Rattus norvegicus	ENSRNOG00000000991	2 retrocopies	retro_rnor_1105, retro_rnor_967,
Sus scrofa	ENSSSCG00000007625	1 retrocopy	retro_sscr_374,