RetrogeneDB ID: retro_dnov_2336

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_65444:7497..8033(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DRAM2
• Ensembl ID: ENSDNOG00000017009
• Aliases: None
• Description: DNA-damage regulated autophagy modulator 2 [Source:HGNC Symbol;Acc:28769]

Sequence

>retro_dnov_2336
ATGTGGTGGTTTCCACAAGCCCTCAGCTTCCTCCCTTCAGCCCTTTGATTTGGACAGCTGCTCCTTTTATCTTTTCATGC
ATTTCTGCAATAACTCTCCGCCGTGTTGACCCTGCTTTGCCTTATATCAGTGATACTGGTGCAGTAGCTCCAGAAAAATG
CTTGTTTGGGGCCATGTTAAATGTCGCTGCAGTTTTATGTGTTGCTACCATTTATGTTCGTTTCAAGCAAGTTCATGCTC
TGAATCCTGAAGAAAGTCGTATCATCAAATTAAACAAAGTTGGCCTTGTGCTTGAACTGCTGAGTTGCTTAGGACTTTCG
ATTGTGGCAAACTTCCAGAAAACCACCCTTTTTGCTACACATGTAAGTGGAGCTGTACTCACCTTTGGTCTGGGCTCATT
ATATATGTTTGTTCAAACCATCCTTTCCTACCAAAAGCAGCCCAAAATTCATGGCAAACAAGTCTTCTGGATCAGACTAC
TGGTGGTTATCTGGTGTGGAGTAAGTGCACCTAGCATGCTGATTTGCTCATCACTT

Alignment

ORF - retro_dnov_2336 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.11 %
• Parental protein coverage: 67.29 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MWWFQQGLSFLPSAL-VIWTAAAFILSYITAITLHHVDPALPYISDTGTVAPEKCLFGAMLNVAAVLCVA
          MWWF.Q.LSFLPSAL..IWTAA.FI.S.I.AITL..VDPALPYISDTG.VAPEKCLFGAMLNVAAVLCVA
Retrocopy MWWFPQALSFLPSAL<LIWTAAPFIFSCISAITLRRVDPALPYISDTGAVAPEKCLFGAMLNVAAVLCVA

Parental  TIYVRYKQVHALNPEESRIIKLNKVGLVLGLLSCLGLSIVANFQKTTLFAAHVSGAVLTFGLGSLYMFVQ
          TIYVR.KQVHALNPEESRIIKLNKVGLVL.LLSCLGLSIVANFQKTTLFA.HVSGAVLTFGLGSLYMFVQ
Retrocopy TIYVRFKQVHALNPEESRIIKLNKVGLVLELLSCLGLSIVANFQKTTLFATHVSGAVLTFGLGSLYMFVQ

Parental  TILSYQMQPKIHGKQVFWIRLLVVIWCGVSALSMLICSSL
          TILSYQ.QPKIHGKQVFWIRLLVVIWCGVSA.SMLICSSL
Retrocopy TILSYQKQPKIHGKQVFWIRLLVVIWCGVSAPSMLICSSL

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	1.94 RPM	32.48 RPM
SRP012922_cerebellum	1.37 RPM	28.87 RPM
SRP012922_heart	0.46 RPM	11.60 RPM
SRP012922_kidney	1.10 RPM	29.02 RPM
SRP012922_liver	1.86 RPM	27.25 RPM
SRP012922_lung	1.07 RPM	37.11 RPM
SRP012922_quadricep_muscle	1.38 RPM	24.92 RPM
SRP012922_spleen	3.89 RPM	91.23 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_2336 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 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000017009	1 retrocopy	retro_dnov_2336 ,
Loxodonta africana	ENSLAFG00000007736	1 retrocopy	retro_lafr_688,
Myotis lucifugus	ENSMLUG00000005097	1 retrocopy	retro_mluc_372,
Mustela putorius furo	ENSMPUG00000004232	1 retrocopy	retro_mputfur_446,
Pteropus vampyrus	ENSPVAG00000005429	2 retrocopies	retro_pvam_1424, retro_pvam_96,