RetrogeneDB ID: retro_ogar_20

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873530.1:19231204..19233361(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000034467
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: LETM1
• Ensembl ID: ENSOGAG00000014883
• Aliases: None
• Description: leucine zipper-EF-hand containing transmembrane protein 1 [Source:HGNC Symbol;Acc:6556]

Sequence

>retro_ogar_20
ATGGCGTCCATCTTGCTGCGGGGTTGTCACGCCCCAGCGCTGGCCCTGAGGGGTGGTCTGGGGCATCCCACTGGCCTCCG
TAGTACCAACACCGTGTGGCTGATCAGCCGGGTGAATATTCCATTTGGCTGCAGCGCTCTGGCCCACCCAGTGTACCTTT
CCAGAGGCCATCCCCTCAGCAGTTGTCACCAGAGACTCGAGCGTTGGCTTCCAGTGGCGGCAGAGCCATGTTTGGTTGTC
GCAGGACCTAGGGGCCTTCCTGTGCCCCGCTGGTACTCATCGTCCTCTCTTGGAGATGACCCCAAACTGAAGACCCCTAC
ATCCTTCAAGGACAAGAACAAGAAGCTAGAGGAAGGTGGGCCCATGTACAGCCCACCCGCGGAGGTGCCGGTGAAGTCAT
TGTGGCGGAGGGTCCTGGACGGGCTGAAGCACTATTACCACGGCTTCCGCCTGCTCTGGATAGACACCAAGATTGCGGTG
CGCACACTCTGGAGGATTCTCAAGGGCCACACTCTGACCCGCCGGGAGCGGAGGCAGTTTGTCCGGGTCTGCGCTGACCT
CTTTCGCCTGGTCCCACTCCTCGTCTTCGTGGTGGTACCATTCATGGAATTCCTGCTGCCCTTGGCAGTGAAGCTCTTTC
CCAACATGTTGCCATCCACCTTCGAGACCCAGTCTACCAAGGAGGAGAGGCTGAAGAAGGAGCTGCGGGGAAAGCTGGAG
CTGGCCAAGTTTCTCCAGGACACTGTGGAGGAGATGGCCTTGAAGAACAAGGCAGCCAAAGGGAGTGCCACCAAAGACTT
CTCCATGTTTTTCCAGAAGATTCGCGAGACGGGGGAAAGACCCAGCACTGAGGAAATTATGCGTTTTTCCAAATTATTTG
AGGATGAGCTGACCCTGGATAACCTTAAACGGCAGCAGCTGGTAGCACTGTGCGAGCTGCTGGATATTCAGGCCATCGGC
ACCAACACCTTCCTGCGCTTTCAGCTCACCATGAGGCTGAGGTCCATCAAGGCTGACGACAGAATGATTGCTGAGGAAGG
AGTAGACAGCCTGAACTTAAAGGAATTGCAGTCTGCGTGTATGGCTCGGGGCATGCGGGCCCTTGGAGTCACAGAAGACC
GTCTGAGGGACCAGCTGAAACAGTGGCTGGATCTGCACCTGTATCAGGAGATCCCTACATCCCTGCTCTTATTGTCCCGA
GCCATGTACCACCCAGACACTCTCTCACCTGCTGACCAGCTCAAATCCACTTTGAAGACCCTTCCAGAGATCGTGGTGAA
GGAAGCCCAAGTGAAAGTGTCCAGTGCTGAGGGTAAGAGGGTGGACAACATGATGAAGTTGGAGGCCACCCTCCAGGAGG
AGAAAGCCATCCAGCAGGAGCACAGGGAGAAGCAGCTGCAGAAGCTCTCCCAAGCAGCAAAGGAAGGGAGGGAGACCGTC
TCTGAGAGGCCAGTGTCTCACAAGCAGCTGGAAGTGCCTGATGTGACCCTGCCATCAGAGGCCCTGAAGGACACTGCCCC
TGTGCTAGAGGTCTTGAAGCAAGCGGAAGAGGAAATAAGTAAGGAAGATATTGACATACTCAGTGATACCTGTTCTAAAC
TGAAAGAGCAAAAGAAGTCCCTAACCCAAGAGAAGGAGGAGCTAGAGCTACTGAAGGAAGATGTCCAAGACTATAGTGAG
GGCTTAGGAGAGACTGAGAAGGAACTTTCAAAGACCGGCAAGGAAAAACTTTTGAAAGAATCTAAAGCCAGAGTAAGACT
GACAGACAGAGTACTGCGCATGACCCGGAGGATAGACAGCTTGATCTCTCAGCTGGAGCAGGATCAGAGGGCTGGCAAGC
TGGGCCCAGCAGAAGGCCCAAGTGCCGAGGAGAAATTCATGAGTGTCGCAGAGCTCATTAGTGTCATGAAGCAAATCAAA
CACATTCCAGAAAAAAAGCTGATCTGCTTGGCCTTAAAAATGGATACAAATAAGGATGGCAGGATCAACATCAACAGCCT
CATCAAGGCAACTGAGCTGTTGGACAAAGAAGACATTCGCCTCTCTACTAGTCAGGTGGCTGAGATTGTGGCAATGCTCG
AGAAGGAGGAGGAGGTGGAAGAGAAGAAGAAGGCTAAGGGAAAGATTGAGAAGGAGGCTGCAGAAATGAAGAATTAG

Alignment

ORF - retro_ogar_20 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.15 %
• Parental protein coverage: 86.86 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LVVAGPQCLPLRGWHSSTPLSDDSMVEKSLRSLKDKNKKLEEGGPVYSPPAEVVVKKSLGQRVLDELKHY
          LVVAGP..LP...W.SS..L.DD....K...S.KDKNKKLEEGGP.YSPPAEV.VK.SL..RVLD.LKHY
Retrocopy LVVAGPRGLPVPRWYSSSSLGDDPKL-KTPTSFKDKNKKLEEGGPMYSPPAEVPVK-SLWRRVLDGLKHY

Parental  YHGFRLLWIDTKIAARMLWRILNGHSLTRRERRQFLRICADLFRLVPFLVFVVVPFMEFLLPVAVKLFPN
          YHGFRLLWIDTKIA.R.LWRIL.GH.LTRRERRQF.R.CADLFRLVP.LVFVVVPFMEFLLP.AVKLFPN
Retrocopy YHGFRLLWIDTKIAVRTLWRILKGHTLTRRERRQFVRVCADLFRLVPLLVFVVVPFMEFLLPLAVKLFPN

Parental  MLPSTFETQSIKEERLKKELRVKLELAKFLQDTIEEMALKNKAAKGSATKDFSVFFQKIRETGERPSNEE
          MLPSTFETQS.KEERLKKELR.KLELAKFLQDT.EEMALKNKAAKGSATKDFS.FFQKIRETGERPS.EE
Retrocopy MLPSTFETQSTKEERLKKELRGKLELAKFLQDTVEEMALKNKAAKGSATKDFSMFFQKIRETGERPSTEE

Parental  IMRFSKLFEDELTLDNLTRPQLVALCKLLELQSIGTNNFLRFQLTMRLRSIKADDKLIAEEGVDSLNVKE
          IMRFSKLFEDELTLDNL.R.QLVALC.LL..Q.IGTN.FLRFQLTMRLRSIKADD..IAEEGVDSLN.KE
Retrocopy IMRFSKLFEDELTLDNLKRQQLVALCELLDIQAIGTNTFLRFQLTMRLRSIKADDRMIAEEGVDSLNLKE

Parental  LQAACRARGMRALGVTEDRLRDQLKQWLDLHLHQEIPTSLLILSRAMYLPDTLSPADQLKSTLQTLPEIV
          LQ.AC.ARGMRALGVTEDRLRDQLKQWLDLHL.QEIPTSLL.LSRAMY.PDTLSPADQLKSTL.TLPEIV
Retrocopy LQSACMARGMRALGVTEDRLRDQLKQWLDLHLYQEIPTSLLLLSRAMYHPDTLSPADQLKSTLKTLPEIV

Parental  AKEAQVKAAELEGEQVDNKAKLEATLQEEAAIQQEHREKELQKLSQAVKDVELEAAPGRPVAGPQPVAEP
          .KEAQVK....EG..VDN..KLEATLQEE.AIQQEHREK.LQKLSQA.K....E....RPV...Q....P
Retrocopy VKEAQVKVSSAEGKRVDNMMKLEATLQEEKAIQQEHREKQLQKLSQAAKEGR-ETVSERPVSHKQ-LEVP

Parental  QPEVPDVTLQSETLEDTAPVLEGLKEEEITKEEIDILSDACSKLKDQKKSLTKEKEELELLKGDVQDYSE
          ....P...L..........VL....E.EI.KE.IDILSD.CSKLK.QKKSLT.EKEELELLK.DVQDYSE
Retrocopy DVTLPSEALKDTA--PVLEVLKQAEE-EISKEDIDILSDTCSKLKEQKKSLTQEKEELELLKEDVQDYSE

Parental  DLQEIKKELSKTGEEKYVEESKASKRLTKRVQQMIGQIDGLITQLEAGQRAGRLGPTEGTTTGENVISVT
          .L.E..KELSKTG.EK...ESKA..RLT.RV..M...ID.LI.QLE..QRAG.LGP.EG....E...SV.
Retrocopy GLGETEKELSKTGKEKLLKESKARVRLTDRVLRMTRRIDSLISQLEQDQRAGKLGPAEGPSAEEKFMSVA

Parental  ELISAMKQIKHIPENKLLSLASALDENKDGKINIDDLVKVIELVDKEDVHVSTSQVAEIVATLEKEEKVE
          ELIS.MKQIKHIPE.KL..LA...D.NKDG.INI..L.K..EL.DKED...STSQVAEIVA.LEKEE.VE
Retrocopy ELISVMKQIKHIPEKKLICLALKMDTNKDGRININSLIKATELLDKEDIRLSTSQVAEIVAMLEKEEEVE

Parental  EKEKAKEKAEKEAAEVKN
          EK.KAK.K.EKEAAE.KN
Retrocopy EKKKAKGKIEKEAAEMKN

Legend:

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

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_20 was not experimentally validated.

Homology

Retrocopy orthology:

Otolemur garnettii 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 7 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000001859	1 retrocopy	retro_cjac_1529,
Homo sapiens	ENSG00000168924	1 retrocopy	retro_hsap_2019,
Gorilla gorilla	ENSGGOG00000002923	2 retrocopies	retro_ggor_1158, retro_ggor_1159,
Nomascus leucogenys	ENSNLEG00000000067	2 retrocopies	retro_nleu_1752, retro_nleu_2731,
Otolemur garnettii	ENSOGAG00000014883	1 retrocopy	retro_ogar_20 ,
Pongo abelii	ENSPPYG00000014533	1 retrocopy	retro_pabe_1655,
Ictidomys tridecemlineatus	ENSSTOG00000014167	1 retrocopy	retro_itri_160,