RetrogeneDB ID: retro_ogar_2679

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873646.1:5382953..5383999(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RFTN2
• Ensembl ID: ENSOGAG00000000275
• Aliases: None
• Description: raftlin family member 2 [Source:HGNC Symbol;Acc:26402]

Sequence

>retro_ogar_2679
GCCAAAAGAGAAATGGAATTTGTTGGATTCATATCACAGCATTATTCACCATCTAAATTCCACAACAGAACCAACCATGA
TGGAGATACAGAATCAGTGCTACATGTGAGACACAGTCCAGATGAAAACCCAAAAGTTGGAATGAAGGGACCTTAAGTGG
ACAATCATCTCAAAGTGGGATTGAGGAGGAGCTTCACCATGAAAGTGGACAGTATCAAATGAAACAAAATGGCAGCCCCA
GCTCCTCTAAATCAAGAAAGGGAGAAGATAACAAATTGTATATAGTCTCCAATGCTTTTGATGATGATTCAACCTGCTGG
GCCTATCAGGAAGACATCCTGGCAATGAAAATAATGAGAAAAGACTCTGTGATTAGCACACTTGATGCTGATTGGCTTGC
ATTAACTACATTTTATTATAAGCAAGGCTTATCTTTAATTGATTCTTTCATATGCTGGGAAACACCTAAAGGCTACCATT
TGCCTAAATCTTTGGAAGGATTTTTTATCTATGAAGAAGAGGGTTCTGGAGTTCCAGGTTGTATTAGGAAAGGAAATGAT
GCCATTGTCATAGAACAATGGACCCATGCTGAGAGCTGTGGAGTCAAAACTGACTATGGCACTTTGTTGCACACTCTAGC
TGAATTTGGATGGCTCCTGACAAGCGTGCTTCCTTCACCTATATTGAGACAGGACAGTGAAGGGAATTTGATTACTAAGC
AGGTCGTATTCCTTCAGAGGCCAGTTATGTGGAATTCAGCTGCTTAAACACCAGATAAGAAAGCCAGCCAGCATATAAAA
AGCAAAGACAGGAACAAAGTCTCCAACAGAAGCATGGAATCAGACATAGCAGCATCATAAATGTTGGAGAGCAGACACCC
ACCTGAGGAGTGCCTGCTGTCTCCTTCTAGAGAGTGCTGGACACAGGAGGCAGGGCCAAAGATAGTCCAGTGACTTCCCA
GGGCTCAGCAGCAGGAACAATGTCCTCTGAAATTAGACAATGGACAGTTTGATCAGGAAGATAGGGTGACGCAGGTCATT
TGCATG

Alignment

ORF - retro_ogar_2679 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.09 %
• Parental protein coverage: 69.94 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  AKRGMKFVGFISQHYSPSKFCNGTNHDGDIESVLRVRHSPDENPK-SWNEGTLSGQSSESGIEEELHLES
          AKR.M.FVGFISQHYSPSKF.N.TNHDGD.ESVL.VRHSPDENPK.SWNEGTLSGQSS.SGIEEELH.ES
Retrocopy AKREMEFVGFISQHYSPSKFHNRTNHDGDTESVLHVRHSPDENPK<SWNEGTLSGQSSQSGIEEELHHES

Parental  GQCQMEQNGSPRSSKSRKGEDNKLYIVFNAFDDDSTCWTYQEGILAMKITRKGSVICTLDADWLELTTFY
          GQ.QM.QNGSP.SSKSRKGEDNKLYIV.NAFDDDSTCW.YQE.ILAMKI.RK.SVI.TLDADWL.LTTFY
Retrocopy GQYQMKQNGSPSSSKSRKGEDNKLYIVSNAFDDDSTCWAYQEDILAMKIMRKDSVISTLDADWLALTTFY

Parental  YKQGLSLIDSFVCWETPKGDHLPKSLEGFFIYEEEGSGVPGSSRKGNDAIVVEQWTVVEGCGIKTDYGPL
          YKQGLSLIDSF.CWETPKG.HLPKSLEGFFIYEEEGSGVPG..RKGNDAIV.EQWT..E.CG.KTDYG.L
Retrocopy YKQGLSLIDSFICWETPKGYHLPKSLEGFFIYEEEGSGVPGCIRKGNDAIVIEQWTHAESCGVKTDYGTL

Parental  LHTLAEFGWLLTSVLPTPILRQDSEGNLVTKQVVFLQRPVMWNSAAQTPDKKVSQHVKSEDRNKVSSRSV
          LHTLAEFGWLLTSVLP.PILRQDSEGNL.TKQVVFLQRPVMWNSAA.TPDKK.SQH.KS.DRNKVS.RS.
Retrocopy LHTLAEFGWLLTSVLPSPILRQDSEGNLITKQVVFLQRPVMWNSAA*TPDKKASQHIKSKDRNKVSNRSM

Parental  GSDTAASQASESRHPPEERLLSPSRECWTQEARPAQ-SSGFPGLSSSNSVL-RELDDGQFDQEDGVTQVT
          .SD.AAS...ESRHPPEE.LLSPSRECWTQEA.P...SS.FPGLSS.N.VL...LD.GQFDQED.VTQV.
Retrocopy ESDIAAS*MLESRHPPEECLLSPSRECWTQEAGPKI>SSDFPGLSSRNNVL<LKLDNGQFDQEDRVTQVI

Parental  CM
          CM
Retrocopy CM

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_2679 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	ENSOGAG00000000275	1 retrocopy	retro_ogar_2679 ,