RetrogeneDB ID: retro_dnov_547

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_60:24414..24991(+)
• Located in intron of: ENSDNOG00000003602

Retrocopy information

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

Parental gene information

• Parental gene symbol: ALDOB
• Ensembl ID: ENSDNOG00000014816
• Aliases: None
• Description: aldolase B, fructose-bisphosphate [Source:HGNC Symbol;Acc:417]

Sequence

>retro_dnov_547
GAAAGAAAGGGAGCTGACTTTGCCAAGCAGTGCTATGCGCTGAAGATCGGGGAGCATGTCCCCTCCGCCCTTGCCGTCAT
GGGGAAGCCTATGTGATGGCCTGTTACCCCAGCTTCTGCCAACAGAATGGCACTGCGCCCGTCGTGGAGCCAGAGATCCT
CACCTATGGGGACCGGGGCTTGAAGCGCTGTTGCATGGAACCGAGAACGTGCTGGCTGCAGTTTAAAGGCTCTGAGCGAC
CACCACGCCTGTGTGGGAACACTTTGCTGAAGCCCAATATGGGGACCCCAGGCCACGCCTGCACCTAGAAGTTTTTTCCG
ACGAGATTGCGGGGTCAACTGACACAGCACTGCGCCGCACAGTGCGCCCGCTGTCCCTGCAGCCGCCTTCCTACCTGGAG
GGCAGAGTGAGGAGGAGGCCTCCATCAACCTCACTGCCATCGACAAGCGCCCCTCCCGAAGCCGAGCGCCCCGACCTTCT
CCTGTGGCCGAGCCCTGCAGCCTCTGACCTGAAGGCCTGGGATGGGAAGAGGAACCTGAAGGCTGCCCAGGAAGAGCGCG
TCCAGTGAGCCCTGGCC

Alignment

ORF - retro_dnov_547 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 50.98 %
• Parental protein coverage: 60.12 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 8

Retrocopy - Parental Gene Alignment:

Parental  KKDGADFGKWRAVLRIADQCPSNLAIQEN-AYTLARYASICQQNGLVPIVEPEVIPDGDHDMEHC-QYVT
          ...GADF.K....L.I....PS.LA.....AY..A.Y.S.CQQNG..P.VEPE....GD.....C....T
Retrocopy ERKGADFAKQCYALKIGEHVPSALAVMGK<AYVMACYPSFCQQNGTAPVVEPEILTYGDRGLKRC<LHGT

Parental  EKVLAAM-YKALNDHHVYL-EGTLLKPNMVTAGHACTKKYTP-EQVAMATVTALHRTV-PAAVPGICFLS
          E.VLAA...KAL.DHH......TLLKPNM.T.GHACT.K..P....A..T.TAL.RTV...AVP...FL.
Retrocopy ENVLAAV<LKALSDHHACV<GNTLLKPNMGTPGHACT*KFFP<DEIAGSTDTALRRTV<APAVPAAAFLP

Parental  GGMSEEDATLNLNAIN-LCPLPRPWKLSFSYGRALQ-ASALAAWNGKAANKKATQEAFMKRAVA
          GG.SEE.A..NL.AI....PLP.P....FS.GRALQ.AS.L.AW.GK..N.KA.QE.....A.A
Retrocopy GGQSEEEASINLTAID<QAPLPKPSAPTFSCGRALQ<ASDLKAWDGK-RNLKAAQEERVQ*ALA

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	20.03 RPM
SRP012922_cerebellum	0.00 RPM	3.16 RPM
SRP012922_heart	0.00 RPM	1.86 RPM
SRP012922_kidney	0.00 RPM	2862.53 RPM
SRP012922_liver	0.00 RPM	2041.13 RPM
SRP012922_lung	0.00 RPM	91.63 RPM
SRP012922_quadricep_muscle	0.00 RPM	2.94 RPM
SRP012922_spleen	0.23 RPM	3.89 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_547 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 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000014816	5 retrocopies	retro_dnov_1625, retro_dnov_1631, retro_dnov_2028, retro_dnov_2152, retro_dnov_547 ,
Echinops telfairi	ENSETEG00000017395	2 retrocopies	retro_etel_2089, retro_etel_945,
Monodelphis domestica	ENSMODG00000014418	2 retrocopies	retro_mdom_1752, retro_mdom_393,
Tupaia belangeri	ENSTBEG00000009298	1 retrocopy	retro_tbel_3244,