RetrogeneDB ID: retro_dnov_680

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_7546:196144..197022(+)
• Located in intron of: ENSDNOG00000016399

Retrocopy information

• Ensembl ID: ENSDNOG00000024574
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: TMEM194A
• Ensembl ID: ENSDNOG00000009044
• Aliases: None
• Description: transmembrane protein 194A [Source:HGNC Symbol;Acc:29001]

Sequence

>retro_dnov_680
GTACGAGTCACCCAAGTGGACAATGAGAGAAGCTAAAGGAGCTAGAGCAGTTCAATATCTGGAACTTCTTTTCCTCCTTT
TTAAAGGAGAAATTGAATGATACCTATATTAACGTGGGTCTGTACAGCACAAAAACCTGTCTCAAAGTTGAGATTATAGA
GCACAACACCAAGTACACTGTCGTTGTGACCCAGAGATTTGACCCCAAACTCTTCTTCATTTTCCTCCTTGGAATTATGC
TATTTTTTTGTGGAGATTTGCTGAGCAGAAGTCAGATTTTCTACTATTCCACTGGGATGAGTGTGGGAACTGTGGCCTCT
CTACTAATCATCATTTTCATACTGTCCAAGTTTATGCCCAAGAAGAGTCCCGTTTACGTCATTCTGGTGGGAGGCTGGTC
CTTTTCTTTATACCTTATTCAACTAGCTTTTAAAAATTTACAAGAGATCTGGAGGTATTACTGGCAGTATCTTTTAAGCT
ACGTCCTCACAGTTGGATTCATGAGTTTTGCAGTGTGTTACAAGTATGGGCTTTTGGAGAATGAACGAAGTATCAACCTG
TTGACTTGGGCCTTGCAGCTGATGGGCTTATGTTTCATGTATTCCGGCATCCAGATTCCACACATTGCCCTTGCCCTTAT
CGTCGTTGCACTGTGCACTAAGAACCTGGAGTATCCTATTCATTGGCTGTACATCACCTACAGAAAGGTGTATAAGGCAA
CAGAAAAGCCTGTCCCCCCTCGTCTCCTGACAGAAGAAGAGTATCGGATACAGGGAGAGGTGGAGACCCGAAAGGCTTTA
GATGAGCTTCGAGAATTTTGTTGCAGTCCGGACTGCTCTGCTTGGAAGACTGTTTCTCGAATCCAGTCTCCAAAAAGA

Alignment

ORF - retro_dnov_680 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.64 %
• Parental protein coverage: 65.99 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VRVTQVDNE-EKLKELEQFNIWNFFSSFLKEKLNDTYINVGLYSTKTCLKVEIIEHNTKYTVVVTRRFDP
          VRVTQVDNE.EKLKELEQFNIWNFFSSFLKEKLNDTYINVGLYSTKTCLKVEIIEHNTKYTVVVT.RFDP
Retrocopy VRVTQVDNE<EKLKELEQFNIWNFFSSFLKEKLNDTYINVGLYSTKTCLKVEIIEHNTKYTVVVTQRFDP

Parental  KLFFIFLLGIMLFFCGDLLSRSQIFYYSTGMSVGIVASLLIIIFILSKFMPKKSPIYVILVGGWSFSLYL
          KLFFIFLLGIMLFFCGDLLSRSQIFYYSTGMSVG.VASLLIIIFILSKFMPKKSP.YVILVGGWSFSLYL
Retrocopy KLFFIFLLGIMLFFCGDLLSRSQIFYYSTGMSVGTVASLLIIIFILSKFMPKKSPVYVILVGGWSFSLYL

Parental  IQLAFKNLQEIWRYYWQYLLSYVLTVGFMSFAVCYKYGLLENERSINLLTWALQLMGLCFMYSGIQIPHI
          IQLAFKNLQEIWRYYWQYLLSYVLTVGFMSFAVCYKYGLLENERSINLLTWALQLMGLCFMYSGIQIPHI
Retrocopy IQLAFKNLQEIWRYYWQYLLSYVLTVGFMSFAVCYKYGLLENERSINLLTWALQLMGLCFMYSGIQIPHI

Parental  ALALIVVALCTKNLEYPIHWLYITYRKVYKATEKPVPPRLLTEEEYRIQGEVETRKALDELREFCCSPDC
          ALALIVVALCTKNLEYPIHWLYITYRKVYKATEKPVPPRLLTEEEYRIQGEVETRKALDELREFCCSPDC
Retrocopy ALALIVVALCTKNLEYPIHWLYITYRKVYKATEKPVPPRLLTEEEYRIQGEVETRKALDELREFCCSPDC

Parental  SAWKTVSRIQSPKR
          SAWKTVSRIQSPKR
Retrocopy SAWKTVSRIQSPKR

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	2.33 RPM
SRP012922_cerebellum	0.00 RPM	1.24 RPM
SRP012922_heart	0.00 RPM	0.46 RPM
SRP012922_kidney	0.00 RPM	0.55 RPM
SRP012922_liver	0.31 RPM	0.77 RPM
SRP012922_lung	0.00 RPM	2.90 RPM
SRP012922_quadricep_muscle	0.00 RPM	0.00 RPM
SRP012922_spleen	0.00 RPM	4.24 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_680 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000009044	1 retrocopy	retro_dnov_680 ,