RetrogeneDB ID: retro_mmur_1211

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_33146:3884..5100(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NAB1
• Ensembl ID: ENSMICG00000007306
• Aliases: None
• Description: NGFI-A binding protein 1 (EGR1 binding protein 1) [Source:HGNC Symbol;Acc:7626]

Sequence

>retro_mmur_1211
ATGGCAGCAGCCTTACCCAGGACCCTGGGGGAGTTGCAAATATGTAGAATACTACAAGAAGCCAGTCTACTTTCTTATTT
TGATGCCTTTATCCAACAAGGTGGTGGTGATGTCCTGCAACTAACTCTATGAAGCTGGAGAAGAGGAATTTTTGAAAATC
ATGGCACTTCTGGGCATGGCTAGCAAGCCCCTTCACGTTAGAAGGCTACAGAAGGCTTTGAGAGACTGGGTTACAAACCC
TGGCCTTTCCAATCAGCCTCTAACTGCCCTTCCGTCAGTAGCGTACCCATCTGTCAATTACCAGAAGGATCACCAACATG
GCTGGGAACACCCTGCAGAAGTTATGAAAAAAGAGTGACGCTCGGGAACCTCATTTTAAAAATCTGTGAATGTGGTGCCA
CCACCTGTGTGCAGAGCTTGAGACAGGGGAAGTCAGATGTGGGGAGCTGGGCACCACAGAGTGAGTGTTGGGGACTCCAG
ACTCTGGCAAGGTCCCCATGCCTCTGAGAGGGAGCACAGTCCCTCCCCCGCACACCTGGCCCCCCAGCCTCTGCCAAGGA
AGGCAGCGAGGCCCTGGCTGCTGCTGCGCTCTCTGTGGCTGACTGTGTGGAAGCAATGGCCCCCACACTACCCAGAAGTC
ACAAGAACGAGGTGAAAGAGCTGCTACAAACCAACAAGAAGATGGCCTAAATGACTGGTCACATCTTTGAGGTGACTGAT
GATGGTCCACACAAAGAAGAGGAAATTTGGAAAGACAGGGCAATCTATGGCACATTTCACTCCAAGAGAAAGGATGGGAA
ACATCTCCCGTTTCAGGAGCTCACTGTTATGAAGCAGCTGCTCCATTCTGTGTGAAGGGTATGCTCTGCTGACGAGAAGA
GATGAGCTTTTTGCCCTGGCCATGCATATTTCTCAAGAAGTCACCTATAAACGTACTTACAGAACCACCAAGTCAAAATG
TGGAGAATGAGATGAATTATCCCCAAAGAGAGTTAAAGTGGAGGATGGGTTTCCAGATTTCCAGGATTCTGTGCAAATGC
TCTTCCCGCAGGCCAGAGGTAAGAGTGAAGGACTTGAGGCTCTTAGCTCACAGCAGCCGGAAAAGGTGAGGGCAGAGCAG
AGGGAGTTCCTCTGCACCCAAGCTGGCTGTGAGAGACTGCAGCATGCTGAGAGGAGACGGCAGGACTTTACAGCAGGGCT
CAGAAGAGCACCGTCC

Alignment

ORF - retro_mmur_1211 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.98 %
• Parental protein coverage: 87.99 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  MAAALPRTLGELQLYRILQKANLLSYFDAFIQQG-GDDVQQ-LCEAGEEEFLEIMALVGMASKPLHVRRL
          MAAALPRTLGELQ..RILQ.A.LLSYFDAFIQQG.GD..Q..L.EAGEEEFL.IMAL.GMASKPLHVRRL
Retrocopy MAAALPRTLGELQICRILQEASLLSYFDAFIQQGGGDVLQL>LYEAGEEEFLKIMALLGMASKPLHVRRL

Parental  QKALRDWVTNPGLFNQPLTSLP-VSSIPIYKLPEGSPTWLGISCSSYE-RNSNAREPH-LKIPKCAATTC
          QKALRDWVTNPGL.NQPLT.LP.VSS.PI..LPEGSPTWLG..C.SYE...S.AREPH.LKI..C.ATTC
Retrocopy QKALRDWVTNPGLSNQPLTALP<VSSVPICQLPEGSPTWLGTPCRSYE<KKSDAREPH>LKICECGATTC

Parental  VQSLGQGKSDVLGSLALPSV--GESRLWQGPHATESEHSLSPADLGSPASPKESSEALDAAAALSVAECV
          VQSL.QGKSDV.GS.A..S...G...L...P...E...SL.P...G.PAS.KE.SEAL.AAAALSVA.CV
Retrocopy VQSLRQGKSDV-GSWAPQSECWGLQTLARSPCL*EGAQSL-PRTPGPPASAKEGSEAL-AAAALSVADCV

Parental  ERMAPTLPKSDLNEVKELLKTNKKLAKMIGHIFEMSDDDPHKEEEIRKYSAIYGRFDSKRKDGKHLTLHE
          E.MAPTLP.S..NEVKELL.TNKK.A.M.GHIFE..DD.PHKEEEI.K..AIYG.F.SKRKDGKHL...E
Retrocopy EAMAPTLPRSHKNEVKELLQTNKKMA*MTGHIFEVTDDGPHKEEEIWKDRAIYGTFHSKRKDGKHLPFQE

Parental  LTV-NEAAAQLCVK-DNALLTRRDELFALARQISREVTYKYTYRTTKSKCGERDELSPKRIKVEDGFPDF
          LTV..EAAA..CVK...ALLTRRDELFALA..IS.EVTYK.TYRTTKSKCGE.DELSPKR.KVEDGFPDF
Retrocopy LTV<YEAAAPFCVK<GYALLTRRDELFALAMHISQEVTYKRTYRTTKSKCGE*DELSPKRVKVEDGFPDF

Parental  QDSVQTLFQQARAKSEELAALTSQQPEKVMAKQMEFLCTQAGYERLQHAERR---LSAGLYRQSS
          QDSVQ.LF.QAR.KSE.L.AL.SQQPEKV.A.Q.EFLCTQAG.ERLQHAERR.....AGL.R..S
Retrocopy QDSVQMLFPQARGKSEGLEALSSQQPEKVRAEQREFLCTQAGCERLQHAERRRQDFTAGLRRAPS

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_1211 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1211 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 8 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000010241	1 retrocopy	retro_chof_2490,
Callithrix jacchus	ENSCJAG00000005748	1 retrocopy	retro_cjac_4224,
Gorilla gorilla	ENSGGOG00000013842	1 retrocopy	retro_ggor_3068,
Microcebus murinus	ENSMICG00000007306	2 retrocopies	retro_mmur_1155, retro_mmur_1211 ,
Nomascus leucogenys	ENSNLEG00000006665	1 retrocopy	retro_nleu_2288,
Pongo abelii	ENSPPYG00000013025	1 retrocopy	retro_pabe_3822,
Ictidomys tridecemlineatus	ENSSTOG00000000098	1 retrocopy	retro_itri_1621,
Tupaia belangeri	ENSTBEG00000011954	1 retrocopy	retro_tbel_3626,