RetrogeneDB ID: retro_dnov_721

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_101632:3301..4057(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AKR1B1
• Ensembl ID: ENSDNOG00000011358
• Aliases: None
• Description: aldo-keto reductase family 1, member B1 (aldose reductase) [Source:HGNC Symbol;Acc:381]

Sequence

>retro_dnov_721
TCTCCCCCAGGCAAAGCCAAAGAGGCTGTGAAGGTAGTGATTGACATAGGATACCACCACATCGACAGCTATGCCTACAA
GAATGAGTGCGAGGTTGGGGAAGTCATCCAAGTGAATATCCAGGAGAAGGTTGTTAAGCAGGAGGACCTCTTCATCATTA
GCAAGTTATGGCCCACCTTCTTTGAGAGATATCTTCTAAAGGAAGCCTGCCATAAGACCCTCAAGGATCTGAAACTGTAC
TATCTGGGCATCTATCTAATTCACTTTCCAGAAGGATTACAGCATGGGAAGGACTGGTACCCCAAAGAAGATAAAGGCAA
TATTCTCACCAGTAAAACAACATTCTTGGGTGCCTGGGAGGCCGTGGAGGAACTGGTGGATGAGGGGCAGGTGAAAGCCA
TTAGATTTCCAACTTCATCCACTTCCAGATCAAAAGGCTCTCGAACAAACCTGGGCTGAAACAAAAACTAGTGACTAACC
AGATTGAGTGTCATCCATTCCTCACACAGGAGAAACTGATCCAGTACTAACACTCCAAGGGTATTATACTCACTGTCTAT
AGCTCCCTGGGTTCTCCAGATAGACCATGAGCCAAGCTGGGGGACCCTTCACTACTGGCTGATCCTAAGATTAAGGCAAT
TGCTGCAAAACACAAAAAAGTACACAACTCAGATTCTGGTCCAGTTTCATATCCAGAGGAATGTGGTCATGATCCCCAAG
TCTCTAACACCTCAACACATTGCTGAGAACTTTCAG

Alignment

ORF - retro_dnov_721 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.57 %
• Parental protein coverage: 86.05 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SPPGKVTEAVKVAIDIGYRHIDCAHVYQNENEVGIAIQEKLKEQVVTRKDLFIVSKLWCTYHEKSMVKGA
          SPPGK..EAVKV.IDIGY.HID....Y.NE.EVG..IQ....E.VV...DLFI.SKLW.T..E....K.A
Retrocopy SPPGKAKEAVKVVIDIGYHHID-SYAYKNECEVGEVIQVNIQEKVVKQEDLFIISKLWPTFFERYLLKEA

Parental  CQKTLSDLKLDYLDLYLIHWPTGFKPGKELFPLDESGNAVPSDTDFVDTWAAMEELVDAGLVKAIG-VSN
          C.KTL.DLKL.YL..YLIH.P.G...GK...P....GN...S.T.F...W.A.EELVD.G.VKAI...SN
Retrocopy CHKTLKDLKLYYLGIYLIHFPEGLQHGKDWYPKEDKGNILTSKTTFLGAWEAVEELVDEGQVKAIR<ISN

Parental  FNHLQIERLLNKPGLKYKPAVNQIECHPYLTQEKLFQYCQAKGIIVTAYSPLGSPDRPWAKPEDPSLLDD
          F.H.QI.RL.NKPGLK.K...NQIECHP.LTQEKL.QY...KGII.T.YS.LGSPDRP.AK..DPSLL.D
Retrocopy FIHFQIKRLSNKPGLKQKLVTNQIECHPFLTQEKLIQY*HSKGIILTVYSSLGSPDRP*AKLGDPSLLAD

Parental  PRIEAIATKHNKT-TAQVLIRFPIQRNMVVIPKSVTPERITENFQ
          P.I.AIA.KH.K..T.Q.L..F.IQRN.V.IPKS.TP..I.ENFQ
Retrocopy PKIKAIAAKHKKV>TTQILVQFHIQRNVVMIPKSLTPQHIAENFQ

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP012922_ascending_colon	0.00 RPM	6.81 RPM
SRP012922_cerebellum	0.00 RPM	43.44 RPM
SRP012922_heart	0.00 RPM	75.18 RPM
SRP012922_kidney	0.00 RPM	17.52 RPM
SRP012922_liver	0.00 RPM	3.41 RPM
SRP012922_lung	0.00 RPM	60.33 RPM
SRP012922_quadricep_muscle	0.00 RPM	50.54 RPM
SRP012922_spleen	0.00 RPM	19.46 RPM

ChIP-Seq

Dasypus novemcinctus was not studied using ChIP-Seq data.

EST

Dasypus novemcinctus was not studied using EST data.

TSS

Dasypus novemcinctus was not studied using FANTOM5 data.

Lab

retro_dnov_721 was not experimentally validated.

Homology

Retrocopy orthology:

Dasypus novemcinctus 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 77 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000009902	3 retrocopies	retro_btau_1092, retro_btau_1642, retro_btau_821,
Canis familiaris	ENSCAFG00000001290	1 retrocopy	retro_cfam_63,
Callithrix jacchus	ENSCJAG00000012231	14 retrocopies	retro_cjac_1140, retro_cjac_1167, retro_cjac_1718, retro_cjac_1973, retro_cjac_2550, retro_cjac_3102, retro_cjac_3143, retro_cjac_3297, retro_cjac_3692, retro_cjac_3840, retro_cjac_3872, retro_cjac_3910, retro_cjac_476, retro_cjac_621,
Dasypus novemcinctus	ENSDNOG00000011358	2 retrocopies	retro_dnov_2214, retro_dnov_721 ,
Homo sapiens	ENSG00000085662	7 retrocopies	retro_hsap_1261, retro_hsap_1422, retro_hsap_2049, retro_hsap_2663, retro_hsap_312, retro_hsap_4745, retro_hsap_851,
Gorilla gorilla	ENSGGOG00000011731	6 retrocopies	retro_ggor_1477, retro_ggor_1859, retro_ggor_2948, retro_ggor_343, retro_ggor_695, retro_ggor_991,
Macropus eugenii	ENSMEUG00000003434	6 retrocopies	retro_meug_1455, retro_meug_1505, retro_meug_1811, retro_meug_1980, retro_meug_486, retro_meug_504,
Microcebus murinus	ENSMICG00000001921	2 retrocopies	retro_mmur_1087, retro_mmur_66,
Mus musculus	ENSMUSG00000001642	10 retrocopies	retro_mmus_1252, retro_mmus_2082, retro_mmus_2678, retro_mmus_3242, retro_mmus_3488, retro_mmus_444, retro_mmus_534, retro_mmus_764, retro_mmus_784, retro_mmus_920,
Nomascus leucogenys	ENSNLEG00000013037	7 retrocopies	retro_nleu_1246, retro_nleu_1533, retro_nleu_2099, retro_nleu_2569, retro_nleu_2570, retro_nleu_418, retro_nleu_419,
Otolemur garnettii	ENSOGAG00000016156	2 retrocopies	retro_ogar_1282, retro_ogar_808,
Procavia capensis	ENSPCAG00000016195	1 retrocopy	retro_pcap_428,
Pongo abelii	ENSPPYG00000018017	8 retrocopies	retro_pabe_1050, retro_pabe_1089, retro_pabe_1176, retro_pabe_1672, retro_pabe_2411, retro_pabe_3691, retro_pabe_370, retro_pabe_694,
Pan troglodytes	ENSPTRG00000019716	6 retrocopies	retro_ptro_1365, retro_ptro_1794, retro_ptro_254, retro_ptro_3040, retro_ptro_3160, retro_ptro_972,
Rattus norvegicus	ENSRNOG00000009513	1 retrocopy	retro_rnor_1438,
Tupaia belangeri	ENSTBEG00000013327	1 retrocopy	retro_tbel_3093,