RetrogeneDB ID: retro_dnov_11

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_57069:10636..11131(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSDNOG00000024161
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDNOG00000014344
• Aliases: None
• Description: None

Sequence

>retro_dnov_11
GTGGACGCCTTCGCGCGTTTCATCAACCAGACCCAGGGCCGGGACCGGCTCTTCAGAGCCACTCAATACACATGCATGTT
GCTTAGATATTTGTTAGAGCCTAAAGCTGGCAAAGAGAAGGTGGTAATGAAGCTCAAGAATCTGGAGTCCAGTGTGAGCA
CTGGCTGTAAATGGTTCAGACTAGGCAATGTGGTCCATGCTGTCCAGGCGACTCAGCATAGCTTTCATGCCACCGACCTG
GTATCCCGCTTATGCCTAACACTAGCCGACCTGAACCGTATGATTTATTTCACCTGTGACACTGTCCTCTGGGTGAGGAG
CGTAGGGCTCTCCTCTGGCATCAGGAAAGAGAAATGGCGAATGTGGGCTGCCCGCCACTACTACTATTCTCTCCTGCTGA
CCCTGGCCAGGGATCTGTATGAAATCTCCCTGCAAATGGAAAAGGTTGTACATGACAGGGCAAAAAGGGAGAAATCACCC
TCCCAGAATCCTCTT

Alignment

ORF - retro_dnov_11 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.12 %
• Parental protein coverage: 66.8 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MDAFVRFTNQTQGRDRLFRATQYTCMLLRYLLEPKAGKEKVIMKLKNLESSVSTGRKWFRLGNVVHAVQA
          .DAF.RF.NQTQGRDRLFRATQYTCMLLRYLLEPKAGKEKV.MKLKNLESSVSTG.KWFRLGNVVHAVQA
Retrocopy VDAFARFINQTQGRDRLFRATQYTCMLLRYLLEPKAGKEKVVMKLKNLESSVSTGCKWFRLGNVVHAVQA

Parental  TQHSFQATDLVSCLCLTLANLNRAIYFICDTVLWVRSVELSSGIRKEKWRMWAARHYYYSLLLTLARDLY
          TQHSF.ATDLVS.LCLTLA.LNR.IYF.CDTVLWVRSV.LSSGIRKEKWRMWAARHYYYSLLLTLARDLY
Retrocopy TQHSFHATDLVSRLCLTLADLNRMIYFTCDTVLWVRSVGLSSGIRKEKWRMWAARHYYYSLLLTLARDLY

Parental  EISLQMEKVAHDRAKREKSLSQNPL
          EISLQMEKV.HDRAKREKS.SQNPL
Retrocopy EISLQMEKVVHDRAKREKSPSQNPL

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	7.20 RPM
SRP012922_cerebellum	0.14 RPM	9.07 RPM
SRP012922_heart	0.00 RPM	3.02 RPM
SRP012922_kidney	0.00 RPM	14.78 RPM
SRP012922_liver	0.15 RPM	11.77 RPM
SRP012922_lung	0.00 RPM	13.44 RPM
SRP012922_quadricep_muscle	0.00 RPM	2.08 RPM
SRP012922_spleen	0.11 RPM	9.50 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_11 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000006140	1 retrocopy	retro_btau_111,
Dasypus novemcinctus	ENSDNOG00000014344	1 retrocopy	retro_dnov_11 ,
Tupaia belangeri	ENSTBEG00000004185	1 retrocopy	retro_tbel_2910,
Tursiops truncatus	ENSTTRG00000015532	1 retrocopy	retro_ttru_412,