RetrogeneDB ID: retro_ogar_2525

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873631.1:2285668..2286701(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GALNT13
• Ensembl ID: ENSOGAG00000016208
• Aliases: None
• Description: UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 13 (GalNAc-T13) [Source:HGNC Symbol;Acc:23242]

Sequence

>retro_ogar_2525
GAGAGTTATGTGAAAAACTGAAAGTACCAGTTCATGTCATTTGAATGGAACAACAGTCTGGATTGATCGGAGCTGGATTA
AAAGGAGCTGCCTTGTCTAAAGGCCAAGCGATCACCTTTCTGGACGCTCACTGTGAGTGCACAGTGGGGTGGCTGGAGCC
TCCTCGAGCCAGGATCAAACATGACAGGAAAACCATGGTATGTCCTATTACTGATGTGAGCGGCGACAATACTTTTGAGT
ACATGGCAGGTTCTGACATGACCTATGGTAGATTCAACTGGAAGCTCAATTTTTGCTGGTATCCTGTTCCCCAAAGAGAA
ATGGACAGAAGGAAAGATCGTGGATCTCTTCCTCTCAGAACACCTGCGATGGCAGGAGGCCTTTTCTCTAGAGACAGAGA
TTACTTTCAGGAAATTGGAACATACGGTGCTGGAATGGATATTTGAGGAGGAGAAAATCTAGAAATTTCCTTTAGGATCT
GGCAGCGTGGAGGGACTTTGGAAATTGTTACATGCTCACATTTGTTTCGGAAAGCCACACCTTACACATTTCCAGGAGGC
ACAGGGCAGATTACCAATAAAAAGAACAGACGACTTGCAGAAGTGTGGATGGATGAATCCAAGAATTTTTTCCATATAAT
TTCTCCAGGTGTCACAAAGGTAGATTACGGAGACATATCATCCAGACTTGGTCTAAGACAGGAACTATAATGCAGACCTT
TGTCTTGGTACCTAGAGAATATTTATCCTGATTCTCAAATTCCATATCACTATTTCTCATTGGGAGATCTACGCAATGTG
GAAACAAATCAATGTCTAGATAACATGACCAGAAAAGAGAATGAAAAAGTTGGAATTTTTAATTGTCACGGTATGGGAGG
TAACTGGGTTTTCTCTCATACTGCCAACAAAGAAATTAGAATGGATGACCTTTGCTCGGATGTTTCCAAACTTTATGGCC
CAGCACAATGTTCAAAGGCCACCACCTAAAAGGACACCAACTTCGGGAGTATGACCCAGGGAAATTAACCCTG

Alignment

ORF - retro_ogar_2525 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.71 %
• Parental protein coverage: 73.89 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  ENYVKN-LDVPVKIIRMEERSGLIRARLRGAAASKGQVITFLDAHCECTLGWLEPLLARIKEDRKTVVCP
          E.YVKN.L.VPV..I.ME..SGLI.A.L.GAA.SKGQ.ITFLDAHCECT.GWLEP..ARIK.DRKT.VCP
Retrocopy ESYVKN<LKVPVHVI*MEQQSGLIGAGLKGAALSKGQAITFLDAHCECTVGWLEPPRARIKHDRKTMVCP

Parental  IIDVISDDTFEYMAGSDMTYGGFNWKLNFRWYPVPQREMDRRKGDRTLPVRTPTMAGGLFSIDRNYFEEI
          I.DV..D.TFEYMAGSDMTYG.FNWKLNF.WYPVPQREMDRRK....LP.RTP.MAGGLFS.DR.YF.EI
Retrocopy ITDVSGDNTFEYMAGSDMTYGRFNWKLNFCWYPVPQREMDRRKDRGSLPLRTPAMAGGLFSRDRDYFQEI

Parental  GTYDAGMDIWGGENLEMSFRIWQCGGSLEIVTCSHVGHVFRKATPYTFPGGTGHVINKNNRRLAEVWMDE
          GTY.AGMDI.GGENLE.SFRIWQ.GG.LEIVTCSH....FRKATPYTFPGGTG...NK.NRRLAEVWMDE
Retrocopy GTYGAGMDI*GGENLEISFRIWQRGGTLEIVTCSH---LFRKATPYTFPGGTGQITNKKNRRLAEVWMDE

Parental  FKDFFYIISPGVVKVDYGDVSVRKTLRENLKCKPFSWYLENIYPDSQIPRRYYSLGEIRNVETNQCLDNM
          .K.FF.IISPGV.KVDYGD.S.R..LR..L.C.P.SWYLENIYPDSQIP..Y.SLG..RNVETNQCLDNM
Retrocopy SKNFFHIISPGVTKVDYGDISSRLGLRQEL*CRPLSWYLENIYPDSQIPYHYFSLGDLRNVETNQCLDNM

Parental  GRKENEKVGIFNCHGMGGNQVFSYTADKEIRTDDLCLDVSRLNGPV-IMLKCHHMRGNQLWDYDSERLTL
          .RKENEKVGIFNCHGMGGN.VFS.TA.KEIR.DDLC.DVS.L.GP...M.K.HH..G.QL..YD...LTL
Retrocopy TRKENEKVGIFNCHGMGGNWVFSHTANKEIRMDDLCSDVSKLYGPA<TMFKGHHLKGHQLREYDPGKLTL

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_2525 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 6 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000013917	1 retrocopy	retro_mmur_228,
Oryctolagus cuniculus	ENSOCUG00000017645	1 retrocopy	retro_ocun_274,
Otolemur garnettii	ENSOGAG00000001408	2 retrocopies	retro_ogar_3253, retro_ogar_717,
Otolemur garnettii	ENSOGAG00000016208	2 retrocopies	retro_ogar_2525 , retro_ogar_3272,
Tupaia belangeri	ENSTBEG00000000869	1 retrocopy	retro_tbel_1671,
Tursiops truncatus	ENSTTRG00000002506	2 retrocopies	retro_ttru_793, retro_ttru_854,