RetrogeneDB ID: retro_dnov_16

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_79676:7420..8143(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSDNOG00000008741
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDNOG00000014497
• Aliases: None
• Description: None

Sequence

>retro_dnov_16
ATGTCGGGCTTTGATAACTTCAACACGGGTTTTTACCAGACAAGTTACAGAATCGATGACCAATCCCAACAGTCCTATGA
TTATGGAGGAAGTAGAGGACCCTATAGCAAACAGTATGGTGGCTATGACTATGCACAGCAAGGCCGATTTGTCCCTCCAG
ACATGATGCAGCCACAGCAGCCCTACACTGGGCAGATTTTCCAGCCAACTCAGGCATTCACTCCAACCACACCTCAGTCA
TTCTATGGAAACAACTTTGAGGATGAGCCGCCTTTATTAGAAGAATTAGGTATCAATTTTGACCACATCTGGCAAAAAAC
ACTCACAGTGTTACATCCATTAAAGGTAGCAGATGGCAGCATCATGAATGAGACTGATTTGGCAGGGCCAGTGGTTTTTT
GTCTTGCATTTGGAGCCACATTGTTACTGGCTGGCAAAATCCAGTTTGGCTATGTATATGGGATCAGTGCAATTGGATGT
CTAGGAATGTTTTGTTTATTAAATTTAATGAGTATGACAGGTGTTTCATTTGGTTGTGTGGCAAGTGTCCTTGGATATTG
TCTTCTTCCCATGATCCTACTTTCCAGCTTTGCAGTCATATTTTCTTTGCAAGGAATGGTAGGAGTCATTCTCACTTCTG
GAATTATTGGATGGTGTAGTTTTTCTGCTTCCAAAATTTTTATTTCTGCATTAGCCATGGAAGGACAGCAACTACTAGTA
GCA

Alignment

ORF - retro_dnov_16 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.93 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSGFDNFNTDFYQTSYSIDDQSQQSYDYGGSGGPYSKQYGGYDYAQQGRFVPPDMMQPQQPYTGQIFQPT
          MSGFDNFNT.FYQTSY.IDDQSQQSYDYGGS.GPYSKQYGGYDYAQQGRFVPPDMMQPQQPYTGQIFQPT
Retrocopy MSGFDNFNTGFYQTSYRIDDQSQQSYDYGGSRGPYSKQYGGYDYAQQGRFVPPDMMQPQQPYTGQIFQPT

Parental  QAFTPTTPQSFYGNNFEDEPPLLEELGINFDHIWQKTLTVLHPLKVADGSIMNETDLAGPMVFCLAFGAT
          QAFTPTTPQSFYGNNFEDEPPLLEELGINFDHIWQKTLTVLHPLKVADGSIMNETDLAGP.VFCLAFGAT
Retrocopy QAFTPTTPQSFYGNNFEDEPPLLEELGINFDHIWQKTLTVLHPLKVADGSIMNETDLAGPVVFCLAFGAT

Parental  LLLAGKIQFGYVYGISAIGCLGMFCLLNLMSMTGVSFGCVASVLGYCLLPMILLSSFAVVFSLQGMVGVI
          LLLAGKIQFGYVYGISAIGCLGMFCLLNLMSMTGVSFGCVASVLGYCLLPMILLSSFAV.FSLQGMVGVI
Retrocopy LLLAGKIQFGYVYGISAIGCLGMFCLLNLMSMTGVSFGCVASVLGYCLLPMILLSSFAVIFSLQGMVGVI

Parental  LTSGIIGWCSFSASKIFISALAMEGQQLLVA
          LTSGIIGWCSFSASKIFISALAMEGQQLLVA
Retrocopy LTSGIIGWCSFSASKIFISALAMEGQQLLVA

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	0.58 RPM	18.67 RPM
SRP012922_cerebellum	0.41 RPM	11.55 RPM
SRP012922_heart	0.23 RPM	6.26 RPM
SRP012922_kidney	0.55 RPM	15.61 RPM
SRP012922_liver	0.31 RPM	14.09 RPM
SRP012922_lung	0.76 RPM	20.31 RPM
SRP012922_quadricep_muscle	0.00 RPM	6.06 RPM
SRP012922_spleen	0.34 RPM	17.51 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_16 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 8 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000010135	1 retrocopy	retro_amel_489,
Dasypus novemcinctus	ENSDNOG00000014497	1 retrocopy	retro_dnov_16 ,
Felis catus	ENSFCAG00000031350	1 retrocopy	retro_fcat_177,
Myotis lucifugus	ENSMLUG00000011143	3 retrocopies	retro_mluc_2549, retro_mluc_521, retro_mluc_750,
Mus musculus	ENSMUSG00000024487	1 retrocopy	retro_mmus_3086,
Otolemur garnettii	ENSOGAG00000001543	2 retrocopies	retro_ogar_2657, retro_ogar_2803,
Sorex araneus	ENSSARG00000013838	1 retrocopy	retro_sara_516,
Tarsius syrichta	ENSTSYG00000008071	1 retrocopy	retro_tsyr_16,