RetrogeneDB ID: retro_ogar_1957

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873577.1:11305425..11306503(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARHGAP28
• Ensembl ID: ENSOGAG00000000195
• Aliases: None
• Description: Rho GTPase activating protein 28 [Source:HGNC Symbol;Acc:25509]

Sequence

>retro_ogar_1957
GAAACAAAACAGAGAAAATGAAAGGACACTGGGATTTTTGGAGTTCCACTCACAGTCCTCCTGGAAAAAGACCCAGCATT
AAAGTTCCTCTTATGTTGCAAAAGTTTTTTGAGGAAGTTGTGGTATCAGGTCTGGAATCTGAAGGAATTTTTTGACTTTC
AGGATGTACTGCCAAAGTCAAGCAATACCCTGAAGAACTGAATGCCAAGTTTAATGCTAATAAATTTACATGGGACAAAA
TGTGCCATAGAGAAGCTGCAGTAATGTTGAATGCATTTTTCAGAGAACTTCCCACATTTCTCTTCCCTGTAGAATATATA
CCTGCCTTGATTGCTCTAATGGAAAGAGGGCCTCACATCAAAGTGCAATTTCATGCCTTGCACCACATGATCACAGCAAT
GCCTGATGCCAACAAGGATACAGCCCAGGCCCTCATGATATTCTTCAATAAAGTGATTGCCAATGAATTCAAAACCCGAA
TGAGTTTGTGGAACTTTTCTACTGTAATGGCACCAAACCTCTTCTTCAATAGAAGCAAACATTCGGATTACAAAGAAGTA
CTATTAGCAAATACTGCAGTCCACATCATCTGCCTAATGCTTAAGTACCAGAAAATTCTGTGGAAGGTTCCATCTTTCTT
ATTTGCTCAAGTAAGAAGGATGAATGAAGTCACCATGTTGTTAAGCAAGCAGCTGCCAAGTGTATAAAAGCTGCTCAGGA
GGAAGACCACAGAATGTGAGATTACAAGCCCCAAGACTTCAAAGGTACTATAAAAATCGCACTCTTTAAGAAGAATGCCT
AACATGCTGGAGGGAGTCTTACAAGTCCACGCTCTACTTCGCTCCAAAGTGTCCATGGCCATTCAACTCAACAGTCAAAC
CAAAGCCAAAGATATACTGGTGAAATTTCAGTATGACAGCAGTCATGGTCCATCAGAATGTATTAAGATTCAGAACCAAA
AGCTGTATGAAGTTGGAGGAAATATAGGACAGCATTGCTTAGATCCAGATACTTATATATTGTATGTATATCATGTAAAA
CCTCAGGGAAAATGGTGATTAAACCCTAAGCAAGTCTT

Alignment

ORF - retro_ogar_1957 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.23 %
• Parental protein coverage: 64.2 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KTEKVKGRDSGIFGVPLIVLLENDRRKDPDIK-VPLVLQKFFEKVEESGLESEGIFRLSGCTAKVKQYRE
          .T...K..D.GIFGVPL.VLLE....KDP..K.VPL.LQKFFE.V..SGLESEGIF.LSGCTAKVKQY.E
Retrocopy ETKQRK*KDTGIFGVPLTVLLE----KDPALK<VPLMLQKFFEEVVVSGLESEGIF*LSGCTAKVKQYPE

Parental  ELDAKFNADKFKWDKMCHREAAVMLKAFFRELPTSLFPVEYIPAFIALMERGPHVKVQFQALHLMVMALP
          EL.AKFNA.KF.WDKMCHREAAVML.AFFRELPT.LFPVEYIPA.IALMERGPH.KVQF.ALH.M..A.P
Retrocopy ELNAKFNANKFTWDKMCHREAAVMLNAFFRELPTFLFPVEYIPALIALMERGPHIKVQFHALHHMITAMP

Parental  DANRDTAQALMTFFTKVIANESKNRMSVWNISTVMAPNLFFSRSKHSDYEELLLANTAAHIIRLMLKYQK
          DAN.DTAQALM.FF.KVIANE.K.RMS.WN.STVMAPNLFF.RSKHSDY.E.LLANTA.HII.LMLKYQK
Retrocopy DANKDTAQALMIFFNKVIANEFKTRMSLWNFSTVMAPNLFFNRSKHSDYKEVLLANTAVHIICLMLKYQK

Parental  ILWKVPSFLITQVRRMNEATMLLKKQLPSVRKLLRRKTIEREITSPKTSKVLQKSHSSRRMSDVPEGVIR
          ILWKVPSFL..QVRRMNE.TMLL.KQLPSV.KLLRRKT.E.EITSPKTSKVL.KSHS.RRM....EGV..
Retrocopy ILWKVPSFLFAQVRRMNEVTMLLSKQLPSV*KLLRRKTTECEITSPKTSKVL*KSHSLRRMPNMLEGVLQ

Parental  VHAPLLSKVSMAIQLNSQTKAKDILAKFQYENSHGPSDCIKIQNQRLYEIGGNIGQHCLDPDAYVLDVYH
          VHA.L.SKVSMAIQLNSQTKAKDIL.KFQY..SHGPS.CIKIQNQ.LYE.GGNIGQHCLDPD.Y.L.VYH
Retrocopy VHALLRSKVSMAIQLNSQTKAKDILVKFQYDSSHGPSECIKIQNQKLYEVGGNIGQHCLDPDTYILYVYH

Parental  VNPQAEW-VIKPQASL
          V.PQ..W.VIKP.ASL
Retrocopy VKPQGKW<VIKP*ASL

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_1957 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	ENSOGAG00000000195	1 retrocopy	retro_ogar_1957 ,