RetrogeneDB ID: retro_dnov_164

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_2247:368427..368826(-)
• Located in intron of: ENSDNOG00000015107

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMBIM6
• Ensembl ID: ENSDNOG00000007882
• Aliases: None
• Description: transmembrane BAX inhibitor motif containing 6 [Source:HGNC Symbol;Acc:11723]

Sequence

>retro_dnov_164
GGAGTTGGCCCTGCTCTGAAGTTGTATATTGCCATCAACACAAGTGTCCTTCCCACTGCCTTCAAGGGGACAGCAATGGT
CCTCCCCTGCTTCACGCTGAGTGTAATCTATGTCAGACATTGTAGCTACCTCTTCCTAGGAGGTATCTTGATGTCATCCA
TGGGCCTGACACTGCTGTCTTCCCTAGGGAACCTTTTCTTTGGATCCCTTGGAGTTTTCCAGGCAAACCTGTATATAGGC
CTGGTGGTCATGTGTGGCTTTGTCCTTTTTGATACTCAATTCATTATTGAAAAGGCTGAAAATGGAGATAAAGATTATAT
CTCTCACTGCATTGATCACTTCCTGGATTTTGTTACTTTATTCAGAAAACTCATGATGATCCTGGCTATGAGTGAGCAG

Alignment

ORF - retro_dnov_164 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.7 %
• Parental protein coverage: 99.25 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GLGPALELCIAINPSILPTAFMGTAMIFTCFTLSALYARRRSYLFLGGILMSAMSLMLLSSLGNLFFGSI
          G.GPAL.L.IAIN.S.LPTAF.GTAM...CFTLS..Y.R..SYLFLGGILMS.M.L.LLSSLGNLFFGS.
Retrocopy GVGPALKLYIAINTSVLPTAFKGTAMVLPCFTLSVIYVRHCSYLFLGGILMSSMGLTLLSSLGNLFFGSL

Parental  WLFQANLYVGLVVMCGFVLFDTQLIIEKAENGDKDYIWHCVDLFLDFVTLFRKLMMILAMNEK
          ..FQANLY.GLVVMCGFVLFDTQ.IIEKAENGDKDYI.HC.D.FLDFVTLFRKLMMILAM.E.
Retrocopy GVFQANLYIGLVVMCGFVLFDTQFIIEKAENGDKDYISHCIDHFLDFVTLFRKLMMILAMSEQ

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	5.06 RPM	74.48 RPM
SRP012922_cerebellum	2.20 RPM	19.38 RPM
SRP012922_heart	1.39 RPM	15.08 RPM
SRP012922_kidney	10.95 RPM	126.22 RPM
SRP012922_liver	11.15 RPM	143.97 RPM
SRP012922_lung	2.90 RPM	56.20 RPM
SRP012922_quadricep_muscle	0.69 RPM	19.21 RPM
SRP012922_spleen	4.01 RPM	54.83 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_164 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 11 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000018588	1 retrocopy	retro_btau_762,
Canis familiaris	ENSCAFG00000008400	2 retrocopies	retro_cfam_1220, retro_cfam_876,
Callithrix jacchus	ENSCJAG00000021032	1 retrocopy	retro_cjac_272,
Dasypus novemcinctus	ENSDNOG00000007882	2 retrocopies	retro_dnov_164 , retro_dnov_857,
Macropus eugenii	ENSMEUG00000015590	4 retrocopies	retro_meug_1076, retro_meug_1706, retro_meug_2157, retro_meug_48,
Monodelphis domestica	ENSMODG00000004277	2 retrocopies	retro_mdom_210, retro_mdom_250,
Otolemur garnettii	ENSOGAG00000005137	2 retrocopies	retro_ogar_1074, retro_ogar_3470,
Pteropus vampyrus	ENSPVAG00000016821	1 retrocopy	retro_pvam_755,
Sarcophilus harrisii	ENSSHAG00000010366	1 retrocopy	retro_shar_622,
Ictidomys tridecemlineatus	ENSSTOG00000001165	2 retrocopies	retro_itri_1273, retro_itri_564,
Tarsius syrichta	ENSTSYG00000002427	1 retrocopy	retro_tsyr_916,