RetrogeneDB ID: retro_ogar_151

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873940.1:27182..28685(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000028182
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: GMCL1
• Ensembl ID: ENSOGAG00000008408
• Aliases: None
• Description: germ cell-less, spermatogenesis associated 1 [Source:HGNC Symbol;Acc:23843]

Sequence

>retro_ogar_151
ATGGGGACTTTAAGCAGTCAAATCCTGCGATGTAAGGAAACAGGCACAGTAGATCTGCAGCAGCCAGAAGTCCAGGCGGG
CCCCAGTTATATGTCTGGCAGTCGCAAGCGCAAGCATGGTGGTGGGCCCTGCTTGGAGTCAAAATCTGACAGCCATTGGT
CTCTGGGGCAGGAAGAGAATCTACAGCAAATCCTCAGTACAAGCAGCAGAAAAAAAGTTAAGATCACATCCAAGTATGCT
TACCAAACTTTATTTTTGAATGGGGAAACCAGTGACATTAAAATCCGTGCTCTGGGGAAAGTATGGTGTTTACACAAAAT
ATTTTTATGTCAATCAGGCTACTTTGCTAATATGTTCAGGGGTTCTTGGAAAGAAACTCACAAAGATATTATTGAACTGG
AGATTAATGACCAGAATATAGATGTGGAATCGTTGCATTTTGTACTAGGCTCATTGTACAGGGATGAAAATGTCTTAATG
GAGCCCCTTCAGGTTCCAGGAGTTTTGGCAACAGCGTATCTGCTTCAGGTAAAGGACTTAACTCAGCAATGTGACGAGAC
TATGACGAAAACGATTAATGTGAAAACTGTATGTGGTTATTATGCAGCAGCAGAAAGCTATGGGTTAGATTATGTAAAGA
CAAGGTGCTTTGAATGGCTTCTTCACAATTTGATGACACACCCAAGTGTTGAACTTTACAAAGAAGTCAGTATAGATCTC
ATGAATCTGCTCATCTCTTCTTCTAATTTACTAGTAACGCAAAAGGAAATGGATGTATACACCACACTTAAAGAGTGGAT
GTTTCTTCGCCTTAACCCAGCTTGGAAAGGCTCAATGAAACAGCTTTTAGTTAATGCGAACAACTGGTTTTCTAGGCACA
GAAAATGTGTTGGTAATACTGCCTTTCTCGAAACAAAAGAAGGCATAACATTTCAACCAGTGTTTAAAAAATTAAGGTTT
CAACATATCATCTGTGACCTTGCCTCCACGAGAGTTATTGAACAAGATACTCTAATACCGTCAGAATGGTTATCCGCTGT
TTACAAACAACAGTGGTTTACTTTGCTCAGGGCACAACAATACAGGGAAATTGGGCCTCAAGACATTAATGAAACAGAAC
TTGAAGAATACAGCATGAGATGTGGTAAAAGGATTATCAAAGATGGAAAATACTCCTGGAAATGGTCAGGTTTCAACTTT
GGCTTTCCCTTACATGTGATCTTTACCAGCCATTATATAATTTTCAAGCAAAATACTTTTAGTCAGCTTTGTGAAGGTTC
TGAATGTTTGCAACCTCTACGAAATATTGCATTCAGATTAACTCTGGCATATTTTGATTCCAGTGGAAAAATAAGTTTCA
GCAAAACAACTGGTTATAAAATCCTTACTTTTGAAAAGGATGAAGAACAAGTGGTGATGAAGTTGGATAGCATAGTTCTG
AGCTTCCCTTTGTATATATTCTGTAACTTCCTGTTTATATCATTGGAAAATACAGGAAACTGA

Alignment

ORF - retro_ogar_151 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.13 %
• Parental protein coverage: 88.99 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  YCPSSRKRKRSSGAFCYCHPDSETEEDEEEGDEQQRLLNTPRSRKKLKSTSKYIYQTLFLNGENSDIKIC
          Y...SRKRK...G.......DS......EE....Q..L.T..SRKK.K.TSKY.YQTLFLNGE.SDIKI.
Retrocopy YMSGSRKRKHGGGPCLESKSDSHWSLGQEEN--LQQILSTS-SRKKVKITSKYAYQTLFLNGETSDIKIR

Parental  ALGEEWSLHKIYLCQSGYFSSMFSGSWKESSMNIIELEIPDQNIDIEALQVAFGSLYRDD-VLIKPSRVI
          ALG..W.LHKI.LCQSGYF..MF.GSWKE....IIELEI.DQNID.E.L....GSLYRD..VL..P..V.
Retrocopy ALGKVWCLHKIFLCQSGYFANMFRGSWKETHKDIIELEINDQNIDVESLHFVLGSLYRDENVLMEPLQVP

Parental  AILAAACMLQLDGLIQQCGETMKETINVKTVCGYYTSAGTYGLDSVKKKCLEWLLNNLMTHQNVELFKEL
          ..LA.A..LQ...L.QQC.ETM..TINVKTVCGYY..A..YGLD.VK..C.EWLL.NLMTH..VEL.KE.
Retrocopy GVLATAYLLQVKDLTQQCDETMTKTINVKTVCGYYAAAESYGLDYVKTRCFEWLLHNLMTHPSVELYKEV

Parental  SINVMKQLIGSSNLFVMQVEMDVYTALKKWMFLQLVPSWNGSLKQLLTETDVWFSKRKKDFEGMTFLETE
          SI..M..LI.SSNL.V.Q.EMDVYT.LK.WMFL.L.P.W.GS.KQLL.....WFS...K......FLET.
Retrocopy SIDLMNLLISSSNLLVTQKEMDVYTTLKEWMFLRLNPAWKGSMKQLLVNANNWFSRHRKCVGNTAFLETK

Parental  QGKPFVPVFRHLRLQYIISDLASARIIEQDSLVPSEWLSSVYKQQWLAMLRAEQDSEMGPQEINKEELEG
          .G..F.PVF..LR.Q.II.DLAS.R.IEQD.L.PSEWLS.VYKQQW...LRA.Q..E.GPQ.IN..ELE.
Retrocopy EGITFQPVFKKLRFQHIICDLASTRVIEQDTLIPSEWLSAVYKQQWFTLLRAQQYREIGPQDINETELEE

Parental  NSMRCGRKLAKDGEYCWRWTGFNFGFDLLVTYTNRYIIFKRNTLNQPCSGSVSLQPRRSIAFRLRLASFD
          .SMRCG....KDG.Y.W.W.GFNFGF.L.V..T..YIIFK.NT..Q.C.GS..LQP.R.IAFRL.LA.FD
Retrocopy YSMRCGKRIIKDGKYSWKWSGFNFGFPLHVIFTSHYIIFKQNTFSQLCEGSECLQPLRNIAFRLTLAYFD

Parental  SSGKLICSRTTGYQILTLEKDQEQVVMNLDSRLLIFPLYICCNFLYISPE
          SSGK...S.TTGY.ILT.EKD.EQVVM.LDS..L.FPLYI.CNFL.IS.E
Retrocopy SSGKISFSKTTGYKILTFEKDEEQVVMKLDSIVLSFPLYIFCNFLFISLE

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_151 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 19 parental genes, and 29 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000016116	1 retrocopy	retro_amel_1915,
Choloepus hoffmanni	ENSCHOG00000012306	2 retrocopies	retro_chof_1562, retro_chof_802,
Equus caballus	ENSECAG00000016813	2 retrocopies	retro_ecab_1109, retro_ecab_899,
Homo sapiens	ENSG00000087338	1 retrocopy	retro_hsap_3407,
Loxodonta africana	ENSLAFG00000002565	3 retrocopies	retro_lafr_220, retro_lafr_592, retro_lafr_98,
Myotis lucifugus	ENSMLUG00000009183	2 retrocopies	retro_mluc_1521, retro_mluc_31,
Macaca mulatta	ENSMMUG00000000858	1 retrocopy	retro_mmul_98,
Mus musculus	ENSMUSG00000001157	1 retrocopy	retro_mmus_3665,
Nomascus leucogenys	ENSNLEG00000010132	1 retrocopy	retro_nleu_2993,
Oryctolagus cuniculus	ENSOCUG00000015808	2 retrocopies	retro_ocun_112, retro_ocun_160,
Otolemur garnettii	ENSOGAG00000008408	1 retrocopy	retro_ogar_151 ,
Pongo abelii	ENSPPYG00000012334	1 retrocopy	retro_pabe_209,
Pan troglodytes	ENSPTRG00000012021	1 retrocopy	retro_ptro_2314,
Pteropus vampyrus	ENSPVAG00000001242	3 retrocopies	retro_pvam_1259, retro_pvam_370, retro_pvam_816,
Sorex araneus	ENSSARG00000004651	1 retrocopy	retro_sara_425,
Sus scrofa	ENSSSCG00000008335	1 retrocopy	retro_sscr_62,
Ictidomys tridecemlineatus	ENSSTOG00000000714	1 retrocopy	retro_itri_59,
Tursiops truncatus	ENSTTRG00000007493	3 retrocopies	retro_ttru_1039, retro_ttru_1647, retro_ttru_1648,
Vicugna pacos	ENSVPAG00000001756	1 retrocopy	retro_vpac_617,