RetrogeneDB ID: retro_dnov_531

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_5808:21271..21858(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DRG1
• Ensembl ID: ENSDNOG00000001312
• Aliases: None
• Description: developmentally regulated GTP binding protein 1 [Source:HGNC Symbol;Acc:3029]

Sequence

>retro_dnov_531
GTGTATTCTGAGGTGGCAGCATATGAACTGTGTCATATGATCACTGTGCCAAGCACCATTGGCTGTGAAGGTGTCAAGAT
GCATCTTCTGGATCTCCCAGGTATCACTGAGGATGCCAAGGATGAGTAAGGTAGAGGCTGTCAAGGAATTTCAGTGGCCG
GAACCTGTTACTTGATCCTGATTGTTCTGGATGTCCTTAAATCCTTGGGGCATAAGAAGACAATTGAAAATGAGCTGGAA
GTCTTTGGCAGTCACATGAACAGAAACCCTTCAACACTGGCTTTAAGAAGAAGGACAAAGGGGGCATTCATCTCACTTCC
ATTTGTCCTTAAAGTGAGCTGGGTGCTAAAACTGTGGGAAGCATCTTGGCTGAATACAAAATTCTTAATGCTGATGTGAC
TTTGCATAGTGATGCCATAGCTGATGAACTAATTGATGTGGTGGAAGGATACAGAGTTTATTTGCCCTGCCTCTATGTGT
TAAATAAGATTGACCAGATCTCCATTGAGGGGTTGGATATCATCTATAAGGCACCTTACTGCATACCCATCTCTGCCCTC
CACCCCTGGAATTTTGATGACCTGTTA

Alignment

ORF - retro_dnov_531 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.6 %
• Parental protein coverage: 55.68 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VYSEVAAYEFTTLTTVPGVIRYKGAKIQLLDLPGIIEGAKDGKGRGRQVIAVARTCNLILIVLDVLKPLG
          VYSEVAAYE.....TVP..I...G.K..LLDLPGI.E.AKD..GRG.Q.I.VA.TC.LILIVLDVLK.LG
Retrocopy VYSEVAAYELCHMITVPSTIGCEGVKMHLLDLPGITEDAKDE*GRGCQGISVAGTCYLILIVLDVLKSLG

Parental  HKKIIENELEGFGIRLN-SKPPNIGFKKKDKGGINLTATCPQSELDADTVKSILAEYKIHNADVTLRSDA
          HKK.IENELE.FG...N..KP.N.GFKKKDKGGI.LT..CP.SEL.A.TV.SILAEYKI.NADVTL.SDA
Retrocopy HKKTIENELEVFGSHMN<QKPFNTGFKKKDKGGIHLTSICP*SELGAKTVGSILAEYKILNADVTLHSDA

Parental  TADDLIDVVEGNRVYIPCIYVLNKIDQISIEELDIIYKVPHCVPISAHHRWNFDDLL
          .AD.LIDVVEG.RVY.PC.YVLNKIDQISIE.LDIIYK.P.C.PISA.H.WNFDDLL
Retrocopy IADELIDVVEGYRVYLPCLYVLNKIDQISIEGLDIIYKAPYCIPISALHPWNFDDLL

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	28.98 RPM
SRP012922_cerebellum	0.00 RPM	51.00 RPM
SRP012922_heart	0.00 RPM	20.65 RPM
SRP012922_kidney	0.00 RPM	42.71 RPM
SRP012922_liver	0.00 RPM	19.35 RPM
SRP012922_lung	0.00 RPM	38.33 RPM
SRP012922_quadricep_muscle	0.00 RPM	26.31 RPM
SRP012922_spleen	0.00 RPM	48.53 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_531 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 17 parental genes, and 27 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000007040	1 retrocopy	retro_amel_1448,
Canis familiaris	ENSCAFG00000032601	6 retrocopies	retro_cfam_1535, retro_cfam_1807, retro_cfam_382, retro_cfam_415, retro_cfam_453, retro_cfam_607,
Ciona intestinalis	ENSCING00000003305	1 retrocopy	retro_cint_1,
Callithrix jacchus	ENSCJAG00000011009	4 retrocopies	retro_cjac_1104, retro_cjac_2246, retro_cjac_2606, retro_cjac_855,
Cavia porcellus	ENSCPOG00000010791	1 retrocopy	retro_cpor_1401,
Ciona savignyi	ENSCSAVG00000006503	1 retrocopy	retro_csav_10,
Dasypus novemcinctus	ENSDNOG00000001312	1 retrocopy	retro_dnov_531 ,
Homo sapiens	ENSG00000185721	1 retrocopy	retro_hsap_2231,
Gorilla gorilla	ENSGGOG00000011185	1 retrocopy	retro_ggor_1665,
Myotis lucifugus	ENSMLUG00000007033	1 retrocopy	retro_mluc_1447,
Macaca mulatta	ENSMMUG00000019099	1 retrocopy	retro_mmul_999,
Mustela putorius furo	ENSMPUG00000012810	1 retrocopy	retro_mputfur_339,
Mus musculus	ENSMUSG00000020457	1 retrocopy	retro_mmus_2366,
Nomascus leucogenys	ENSNLEG00000027001	1 retrocopy	retro_nleu_2627,
Pan troglodytes	ENSPTRG00000014272	1 retrocopy	retro_ptro_1578,
Ictidomys tridecemlineatus	ENSSTOG00000014187	1 retrocopy	retro_itri_460,
Tarsius syrichta	ENSTSYG00000010160	3 retrocopies	retro_tsyr_1374, retro_tsyr_1918, retro_tsyr_405,