RetrogeneDB ID: retro_dnov_1581

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_239230:7..388(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TSN
• Ensembl ID: ENSDNOG00000025740
• Aliases: None
• Description: translin [Source:HGNC Symbol;Acc:12379]

Sequence

>retro_dnov_1581
AGTTTAGAACAAACAGCTCCAGAGATTCCAGCACTACTGCAAGGGAATTATCAGGGTGCCGGGATGCTAGATATTCAAAG
AGGTGTTTGAAAGCTGAGAACATTTTGGTACAGTAAAAACACATCTAACATCTCTGAAAATCAAGTTTCCTGATGATCAG
TACTTCCGGTTTCATGATCACTGCAGGTTTGTGTTGCAATGCTTGGTCTCGGCAGCATTTGCTGTGTTTTTGGAATCAGA
AACACTCGTGACTCCAGAATTGGTTACTGAAATTTTTGGGCTTGAGCTAGATGGGGAGAAAAGATTTCATCTGGATGTAG
AGACTATCTTTACGAGTTTATTCTTCCTAGTGAGCTATCAATGCTGTCAGTCAACAGCATG

Alignment

ORF - retro_dnov_1581 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.18 %
• Parental protein coverage: 63.11 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  SLEQTAREILTLLQGVHQGAGFQDIP-KRCLKAR-EHFGTVKTHLTSLKTKFPAEQYYRFHEHWRFVLQR
          SLEQTA.EI..LLQG..QGAG..DI..KRCLKA..EHFGTVKTHLTSLK.KFP..QY.RFH.H.RFVLQ.
Retrocopy SLEQTAPEIPALLQGNYQGAGMLDIQ<KRCLKAE<EHFGTVKTHLTSLKIKFPDDQYFRFHDHCRFVLQC

Parental  LVFLAAFVVYLESETLVTREAVTEILGIEPDREKGFHLDVE-DYLSGVLILASELSRLSVNSV
          LV..AAF.V.LESETLVT.E.VTEI.G.E.D.EK.FHLDVE.DYL....IL.SELS.LSVNS.
Retrocopy LV-SAAFAVFLESETLVTPELVTEIFGLELDGEKRFHLDVE<DYLY-EFILPSELSMLSVNSM

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	11.08 RPM
SRP012922_cerebellum	0.00 RPM	12.37 RPM
SRP012922_heart	0.00 RPM	3.25 RPM
SRP012922_kidney	0.00 RPM	6.30 RPM
SRP012922_liver	0.00 RPM	5.73 RPM
SRP012922_lung	0.00 RPM	8.71 RPM
SRP012922_quadricep_muscle	0.00 RPM	3.81 RPM
SRP012922_spleen	0.00 RPM	11.10 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_1581 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.

---

Parental genes homology:

Parental genes homology involve 14 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000006059	1 retrocopy	retro_btau_1598,
Dasypus novemcinctus	ENSDNOG00000025740	2 retrocopies	retro_dnov_1581 , retro_dnov_907,
Felis catus	ENSFCAG00000027149	1 retrocopy	retro_fcat_1577,
Homo sapiens	ENSG00000211460	1 retrocopy	retro_hsap_3760,
Gorilla gorilla	ENSGGOG00000002216	2 retrocopies	retro_ggor_2528, retro_ggor_2610,
Myotis lucifugus	ENSMLUG00000012656	1 retrocopy	retro_mluc_1420,
Macaca mulatta	ENSMMUG00000021119	1 retrocopy	retro_mmul_1718,
Monodelphis domestica	ENSMODG00000000147	1 retrocopy	retro_mdom_1896,
Nomascus leucogenys	ENSNLEG00000001202	1 retrocopy	retro_nleu_170,
Ornithorhynchus anatinus	ENSOANG00000003457	1 retrocopy	retro_oana_120,
Oryctolagus cuniculus	ENSOCUG00000023529	1 retrocopy	retro_ocun_271,
Otolemur garnettii	ENSOGAG00000030436	3 retrocopies	retro_ogar_1221, retro_ogar_2875, retro_ogar_3426,
Pan troglodytes	ENSPTRG00000012420	1 retrocopy	retro_ptro_2551,
Tarsius syrichta	ENSTSYG00000004395	1 retrocopy	retro_tsyr_1593,