RetrogeneDB ID: retro_ogar_353

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873520.1:46401953..46403093(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000031106
• Aliases: None
• Description: None

Sequence

>retro_ogar_353
AATGCTAATTCACCAGCTGCCCCACTTAACAGGTTCAAGAACAAGGGAAAAGACAGTACAGAAATGAGGCGACGCCGAAT
AGAAGTTAATGTGGAGTTAAGGAAAGCTAAGAAAGATGACCAGATGCTGAAAAGGAGAAATGTAAGCTCGTTTCCTGATG
ATGCTACTTCTCCACTGCTGGAAAACTGAAGTAACCAGGGTACTGTAAATTGGTCTGTGGATGACAGTGTCAAAGGTATA
AATACCACCAATATGGAAAACCAGCTCCAAGCTACTCAAGCTGCCAGGAAACTACTTTCTAGAGAAAAACAGCCTCCCAT
CGATGATATAATCCCAGCTGGTTTGATCCCAAAATTTGTGTCCTTCTTGGGTAGAACTGATTGTAGTCCCATTCAGTTTG
AATCTGCTTGGGCGCTAACTAACATTGCTTCTGGGACATCAGAACAGACTAAGGCTGTGGTAGATGGCGGTGCTATCCCA
GCATTCATTTCTCTATTGGCATCTCCTCATGCTCATATCAGTGAGCAAGCTGTGTGGGCTCTAGGAAACATTGCAGGTGA
TGGTTCAGTTTTCCGAGACTTGGTTATTAAGTATGGTGCAGTTGACCTACTGTTGGCTCTTCTAGCTATTCCTGATATGT
CATCTTTATCATGTGGTTACTTACATAATCTTACCTGGACACTTTTAAACCTTTGTCGCAACAAGAATCCTGCACCCCCA
TTAGATGCTGTGGAACAGATTCTTCCTACTTTAGTGCGTCTCCTACAGCATGATGATCCAGAGGTATTAGCAGATACTTG
CTGGGCTATTTCGTACCTTACTGATGGCCCAAATGAATGGATTGAAATGGTTGTGAAAACAGGAGTTGTGCCCCAACTTG
TGAAGCTTTTGGGAGCTACCGAATTGCCAATTGTGACTCCTGCGCTAAGAGCCATAGGGAATATTGTCACTGGGACAGAT
GAACAGACTCAGGTTGTAATTGATGCAGGAGCACTTACTGTCTTTCCCAGCCTACTGACCAACCCCAAAACTAACATTCA
AAAGGAAGCTACATGGACAATGTCAAACATCACAGCTGGCCGTTAGGACCAGATACAGCAAGTTATAAATCATAGACTAG
TCCCGTTACTTGTTGGTGTT

Alignment

ORF - retro_ogar_353 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.16 %
• Parental protein coverage: 75.66 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NSDAPEERLRKFKYRGKDASMRRQQRIVVSQKLRKVKKDEQTFKRRNIVSFSHD---PASENLAEEMSVS
          N...P...L..FK..GKD....R..RI.V...LRK.KKD.Q..KRRN..SF..D...P..EN......V.
Retrocopy NANSPAAPLNRFKNKGKDSTEMRRRRIEVNVELRKAKKDDQMLKRRNVSSFPDDATSPLLEN*SNQGTVN

Parental  LTLSEIIKGVNSSDPILRFQATQEARKMLSWERNPPLKLVVEAGLIPRLVEFLKSSLYPCLQFEAAWALT
          .......KG.N........QATQ.ARK.LS.E..PP......AGLIP..V.FL........QFE.AWALT
Retrocopy WSVDDSVKGINTTNMENQLQATQAARKLLSREKQPPIDDIIPAGLIPKFVSFLGRTDCSPIQFESAWALT

Parental  NIASGTSEQTRAVVEGGAVQPLVELLSSTHMIVCEQAVWALGNIAGDGSKFRDIVISSNAIPHLLALIS-
          NIASGTSEQT.AVV.GGA......LL.S.H....EQAVWALGNIAGDGS.FRD.VI...A...LLAL...
Retrocopy NIASGTSEQTKAVVDGGAIPAFISLLASPHAHISEQAVWALGNIAGDGSVFRDLVIKYGAVDLLLALLAI

Parental  ---SNIPITFLRNITWTLSNLCRNKNPYPCQKAVKQMLPVLSQLLQHHDNEILSDTCWALSYLTDGCNER
          ...S......L.N.TWTL.NLCRNKNP.P...AV.Q.LP.L..LLQH.D.E.L.DTCWA.SYLTDG.NE.
Retrocopy PDMSSLSCGYLHNLTWTLLNLCRNKNPAPPLDAVEQILPTLVRLLQHDDPEVLADTCWAISYLTDGPNEW

Parental  IGEVVNTGILPRLVELMTSSELSVLTPSLRTVGNIVTGTDQQTQMAIDAGMLNILPQLLRHPKPSIQKEA
          I..VV.TG..P.LV.L....EL...TP.LR..GNIVTGTD.QTQ..IDAG.L...P.LL..PK..IQKEA
Retrocopy IEMVVKTGVVPQLVKLLGATELPIVTPALRAIGNIVTGTDEQTQVVIDAGALTVFPSLLTNPKTNIQKEA

Parental  TWALSNVAAGPRHHIQQLIACDILPSLVAL
          TW..SN..AG....IQQ.I.....P.LV..
Retrocopy TWTMSNITAGR*DQIQQVINHRLVPLLVGV

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_353 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 16 parental genes, and 31 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000015125	2 retrocopies	retro_cfam_459, retro_cfam_861,
Choloepus hoffmanni	ENSCHOG00000004243	1 retrocopy	retro_chof_805,
Callithrix jacchus	ENSCJAG00000015943	1 retrocopy	retro_cjac_2964,
Equus caballus	ENSECAG00000000554	1 retrocopy	retro_ecab_981,
Echinops telfairi	ENSETEG00000000096	1 retrocopy	retro_etel_1548,
Homo sapiens	ENSG00000185467	1 retrocopy	retro_hsap_3337,
Mus musculus	ENSMUSG00000038770	2 retrocopies	retro_mmus_2844, retro_mmus_3301,
Nomascus leucogenys	ENSNLEG00000010827	1 retrocopy	retro_nleu_1680,
Otolemur garnettii	ENSOGAG00000011924	1 retrocopy	retro_ogar_2991,
Otolemur garnettii	ENSOGAG00000027672	7 retrocopies	retro_ogar_1044, retro_ogar_1142, retro_ogar_1757, retro_ogar_2008, retro_ogar_464, retro_ogar_477, retro_ogar_936,
Otolemur garnettii	ENSOGAG00000031106	3 retrocopies	retro_ogar_1289, retro_ogar_3237, retro_ogar_353 ,
Ochotona princeps	ENSOPRG00000015434	2 retrocopies	retro_opri_1101, retro_opri_118,
Pongo abelii	ENSPPYG00000017369	1 retrocopy	retro_pabe_2750,
Pan troglodytes	ENSPTRG00000019446	2 retrocopies	retro_ptro_102, retro_ptro_2142,
Tupaia belangeri	ENSTBEG00000009007	3 retrocopies	retro_tbel_1475, retro_tbel_3862, retro_tbel_3962,
Tursiops truncatus	ENSTTRG00000002998	2 retrocopies	retro_ttru_1426, retro_ttru_430,