RetrogeneDB ID: retro_ogar_2513

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873630.1:1769794..1771390(-)
• Located in intron of: ENSOGAG00000031219

Retrocopy information

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

Parental gene information

• Parental gene symbol: B5FW75_OTOGA
• Ensembl ID: ENSOGAG00000003370
• Aliases: None
• Description: Na+/glucose co-transporter (Predicted) [Source:UniProtKB/TrEMBL;Acc:B5FW75]

Sequence

>retro_ogar_2513
GTACTGGAGACAGCAGACATTGCCATAGTGGCCCTGTATTTTATCCTGGTCATGTGCATTGGTTTTTTTGCCATGTGGAA
ATCTAATAGAAGCACTGTGAGCGGATACTTCCTGGCGGGGCGCTCTATGACCTGGGTAGCAATTGGTGCCTCTCTGTTTG
TAAGCAATATTGGGAGTGAGCACTTCATTGGGCTGGCAGGATCTGGAGCTGCAAGTGGATTTGCAGTGGGCGCATGGGAA
TTCAATGCCTTACTGCTTTTGCAACTTCTGGGATGGGTATTCATCCCAATTTACATCCGTTCAGGGGTATACACCATGCC
TGAATACTTGTCCAAGCGATTTGGTGGCCATAGGATTCAGGTCTATTTTGCCGCCTTGTCTCTGATTCTCTATATCTTCA
CCAAGCTTTCAGTGGATCTGTATTCAGGTGCCCTGTTTATCCAGGAGTCTTTGGGTTGGAATCTTTATGTGTCAGTCATC
CTGCTCATTGGCATGACTGCTTTGCTGACTGTCACCGGAGGCCTTGTTGCAGTGATCTACACAGACACTCTGCAGGCTCT
GCTCATGATCGTTGGGGCACTTACGCTCATGATTATTAGCATGATGGAGATTGGCGGGTTTGAGGAAGTTAAACGAAGGT
ATATGTTGGCCTCACCCAATGTCACTTCCATCTTGCTGACATACAACCTTTCCAACACAAATTCTTGTAATGTCTACCCT
AAGAAAGAAGCCCTGAAAATGCTGCGGAATCCAACAGATGAAGATGTTCCTTGGCCTGGATTCATTCTTGGGCAGACTCC
GGCCTCAGTATGGTACTGGTGTGCTGACCAAGTCATCGTGCAGAGGGTCCTAGCAGCCAAAAACATTGCTCATGCCAAAG
GTTCTACTCTTATGGCTGGCTTCTTGAAACTTCTGCCGATGTTTATCATAGTTGTCCCAGGAATGATTTCCAGGATACTG
TTTGCTGATGACATAGCTTGCATCAACCCAGAGCACTGCATGCAAGTGTGTGGAAGCAGAGCTGGGTGCTCCAATATTGC
ATACCCGCGCCTGGTGATGAAGCTGGTTCCTGTGGGTCTTCGGGGCTTAATGATGGCAGTGATGATTGCAGCTCTGATGA
GTGACTTGGACTCTATCTTTAACAGTGCCAGTACCATATTCACCCTTGATGTGTACAAACTCATCCGCAAGAGTGCAAGC
TCCCGGGAGCTAATGATTGTGGGGAGGATATTTGTGGCTTTTATGGTGGTGATCAGCATAGCTTGGGTGCCAATCATCGT
GGAGATGCAAGGTGGCCAGATGTACCTTTACATTCAGGAGGTAGCAGATTACCTGACACCCCCAGTAGCAGCCCTGTTCC
TTCTGGCAATTTTCTGGAAGCGCTGCAATGAACAAGGGGCTTTCTATGGTGGAATGGCTGGCTTTGTTCTTGGAGCAGTC
CGTTTGATACTGGCTTTTGCCTACCGTGCCCCAGAGTGTGACCAACCTGATAACAGGCCAGGCTTCATCAAAGATATACA
TTATATGTATGTGGCCACAGCATTGTTTTGGGTCACAGGACTCATTACTGTAATTGTTAGCCTTCTCACACCACCT

Alignment

ORF - retro_ogar_2513 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.89 %
• Parental protein coverage: 79.76 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IRNAADISVIVIYFVVVMAVGLWAMFSTNRGTVGGFFLAGRSMVWWPIGASLFASNIGSGHFVGLAGTGA
          ....ADI.....YF..VM..G..AM...NR.TV.G.FLAGRSM.W..IGASLF.SNIGS.HF.GLAG.GA
Retrocopy VLETADIAIVALYFILVMCIGFFAMWKSNRSTVSGYFLAGRSMTWVAIGASLFVSNIGSEHFIGLAGSGA

Parental  ASGIATGAFEWNALFLVVVLGWIFVPIYIKAGVVTMPEYLRKRFGGKRIQVYLSVLSLLLYIFTKISADI
          ASG.A.GA.E.NAL.L...LGW.F.PIYI..GV.TMPEYL.KRFGG.RIQVY...LSL.LYIFTK.S.D.
Retrocopy ASGFAVGAWEFNALLLLQLLGWVFIPIYIRSGVYTMPEYLSKRFGGHRIQVYFAALSLILYIFTKLSVDL

Parental  FSGAIFINLALGLNLYLAIFLLLAITGLYTITGGLAAVIYTDTLQTAIMLVGSLILTGFAFHEVGGYDAF
          .SGA.FI...LG.NLY....LL...T.L.T.TGGL.AVIYTDTLQ...M.VG.L.L......E.GG....
Retrocopy YSGALFIQESLGWNLYVSVILLIGMTALLTVTGGLVAVIYTDTLQALLMIVGALTLMIISMMEIGGFEEV

Parental  MEKYMNA---IPTLTSEGNITIREECYT-PRPDSFHIFRDPLKGDLPWPGLIFGLSILALWYWCTDQVIV
          ...YM.A...........N......C...P........R.P...D.PWPG.I.G......WYWC.DQVIV
Retrocopy KRRYMLASPNVTSILLTYNLSNTNSCNVYPKKEALKMLRNPTDEDVPWPGFILGQTPASVWYWCADQVIV

Parental  QRCLSAKNMSHVKAGCTMCGYLKLLPMFLMVMPGMISRILYTEKIACTLPSECEKYCGTKVGCTNIAYPT
          QR.L.AKN..H.K....M.G.LKLLPMF..V.PGMISRIL....IAC..P..C...CG...GC.NIAYP.
Retrocopy QRVLAAKNIAHAKGSTLMAGFLKLLPMFIIVVPGMISRILFADDIACINPEHCMQVCGSRAGCSNIAYPR

Parental  LVVELMPNGLRGLMLSVMMASLMSSLTSIFNSASTLFTMDIYTKVRKQASERELMIAGRLFILVLIGISI
          LV..L.P.GLRGLM..VM.A.LMS.L.SIFNSAST.FT.D.Y...RK.AS.RELMI.GR.F......ISI
Retrocopy LVMKLVPVGLRGLMMAVMIAALMSDLDSIFNSASTIFTLDVYKLIRKSASSRELMIVGRIFVAFMVVISI

Parental  AWVPIVQSAQSGQLFDYIQSITSYLGPPIAAVFLLAVFWKRVNEPGAFWGLILGFLIGVARMITEFAYGT
          AWVPI....Q.GQ...YIQ....YL.PP.AA.FLLA.FWKR.NE.GAF.G...GF..G..R.I..FAY..
Retrocopy AWVPIIVEMQGGQMYLYIQEVADYLTPPVAALFLLAIFWKRCNEQGAFYGGMAGFVLGAVRLILAFAYRA

Parental  GSCMEPSNCPTIICGVHYLYFAILLFVISIITIVIVSLLTKP
          ..C..P.N.P..I...HY.Y.A..LF.......VIVSLLT.P
Retrocopy PECDQPDNRPGFIKDIHYMYVATALFWVTGLITVIVSLLTPP

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_2513 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 14 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Anas platyrhynchos	ENSAPLG00000007944	1 retrocopy	retro_apla_5,
Choloepus hoffmanni	ENSCHOG00000005940	1 retrocopy	retro_chof_2,
Callithrix jacchus	ENSCJAG00000011369	1 retrocopy	retro_cjac_2033,
Ficedula albicollis	ENSFALG00000007384	1 retrocopy	retro_falb_29,
Homo sapiens	ENSG00000100170	1 retrocopy	retro_hsap_105,
Gallus gallus	ENSGALG00000006728	1 retrocopy	retro_ggal_2,
Monodelphis domestica	ENSMODG00000009915	1 retrocopy	retro_mdom_1324,
Mustela putorius furo	ENSMPUG00000012749	1 retrocopy	retro_mputfur_837,
Oryctolagus cuniculus	ENSOCUG00000017569	1 retrocopy	retro_ocun_1633,
Otolemur garnettii	ENSOGAG00000003370	1 retrocopy	retro_ogar_2513 ,
Ochotona princeps	ENSOPRG00000010458	1 retrocopy	retro_opri_6,
Procavia capensis	ENSPCAG00000015157	1 retrocopy	retro_pcap_3,
Rattus norvegicus	ENSRNOG00000017775	1 retrocopy	retro_rnor_794,
Ictidomys tridecemlineatus	ENSSTOG00000006386	1 retrocopy	retro_itri_13,