RetrogeneDB ID: retro_ogar_2185

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873600.1:683477..684427(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PHACTR4
• Ensembl ID: ENSOGAG00000015245
• Aliases: None
• Description: phosphatase and actin regulator 4 [Source:HGNC Symbol;Acc:25793]

Sequence

>retro_ogar_2185
ATTGCTGAACTGTCCCAAGCAATAAACAGTGGTGTATTGTGATTAAAACCATCCCACCCTTACCACCTAAGAGAGGCATT
CTGTCAACCTCAGTACCCACCATGGAGCCTGCTGCTGCCATCATCACAAAACACCAAATGTTCAAAGAGAGAAGAGCACG
TACTCTGTGGGCTCTGAACCACTAATGATGGTCCACCTCCCTCTCCATCCCCCCCCACTGCCTGCTCATATACCTCCAGA
GCCTCCACGTTCCCCTCTATTCCCTGCTAAGACTCTTGCAGTTATGCCAGAAATTGAGTTTGTAGCATCCGTAGATTTAC
CCCAAGAGGTTTCCCAGCAAGAATATCGGAAGAGGAAAGTCCCAAAGAGGATATTGGACCAGAGCTCTGGGGAGCCCCAG
GTAACTTCTAGACTGCCCCCACTCCCACTGCATGTTCAAACCCAGCAGGCCCTGACCAGCCCACTTCCCATGACTCCTCC
ATTGGAGGACCTCACAGAGCTCATTCATTGCTCTTTGAGAACAACAACTTTTATGAGGACAGCATTACTCTGGGTTGGAC
CAGGTCACTTCTTATCACTACTGAAATGGTGAAATTCCAGAGGATGAAGATGGAGAGCAGATCTGCCCACCTGCATTCAG
TGAAGATGTGATGCCTGTCTCAGTCACCTCCAAACTACCACAGTGTCTGCAAGAGGAAGACGAGGAGAAGGAGAGTGACT
GATTCTGAGCGGCCCACTCAGTACCGAGATGAAGAGGATGAAGATGAGAGCTGACAGAGTGCTCTGGCCAACAAAGTGAA
AAGGAAAGACACACTGGCAATGAAGTTGAACCACAGACCCAGTGAACCAGAAATGAACTTGAATACTTGACCTCCTAAAA
GAAGGAGTGGAATTAAGTTCAGCACCAGATTGGGAATACGGTGATCCAGTGACAGTCAAAGACCAACACC

Alignment

ORF - retro_ogar_2185 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.56 %
• Parental protein coverage: 75.35 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 8

Retrocopy - Parental Gene Alignment:

Parental  LAELSQAINSGTLLSKPS-PPLPPKRGIPSTLVPTVEPAPVITTK-TPSDQREKSTYSVGSEPLMII-PP
          .AELSQAINSG.L..KPS.PPLPPKRGI.ST.VPT.EPA..I.TK.TP..QREKSTYSVGSEPLM...PP
Retrocopy IAELSQAINSGVL*LKPS<PPLPPKRGILSTSVPTMEPAAAIITK<TPNVQREKSTYSVGSEPLMMV<PP

Parental  PSPSPP-LPTHIPPEPPRSPPFPAKTFVVVPEIEFIPCLDLSQEVSQQEDQKKEVPKRILDQSFGEPHVP
          PSP....LP.HIPPEPPRSP.FPAKT..V.PEIEF....DL.QEVSQQE..K..VPKRILDQS.GEP.V.
Retrocopy PSPXXX>LPAHIPPEPPRSPLFPAKTLAVMPEIEFVASVDLPQEVSQQEYRKRKVPKRILDQSSGEPQVT

Parental  SRLPPLPLHIRIQQALTSPLPMTPPLE-GSHRAHSLLFENSDNFCEDSVTLGRTRSLPITIEMLK-VPDD
          SRLPPLPLH...QQALTSPLPMTPPLE.G.HRAHSLLFEN..NF.EDS.TLG.TRSL.IT.EM.K..P.D
Retrocopy SRLPPLPLHVQTQQALTSPLPMTPPLE<GPHRAHSLLFENN-NFYEDSITLGWTRSLLITTEMVK<IPED

Parental  EEEEQICPPAFSEDVMSTSVISKLPQCLQEEEEEKESD-SDSEGPIQYRDEEDEDESHQSALANKVKRKD
          E..EQICPPAFSEDVM..SV.SKLPQCLQEE..E......DSE.P.QYRDEEDEDES.QSALANKVKRKD
Retrocopy EDGEQICPPAFSEDVMPVSVTSKLPQCLQEE-DEEKES>TDSERPTQYRDEEDEDES*QSALANKVKRKD

Parental  TLAMKLNHRPSEPELNLNIWPHK-SKEEWNEIRHQIGNTLIRRLSQRPT
          TLAMKLNHRPSEPE.NLN..P.K..KE.WN...HQIGNT.I...S...T
Retrocopy TLAMKLNHRPSEPEMNLNT*PPK<KKE-WN*VQHQIGNTVIQ*QSKTNT

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_2185 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.

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000015245	1 retrocopy	retro_ogar_2185 ,