RetrogeneDB ID: retro_dnov_695

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_930:52929..53499(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: WDR77
• Ensembl ID: ENSDNOG00000006521
• Aliases: None
• Description: WD repeat domain 77 [Source:HGNC Symbol;Acc:29652]

Sequence

>retro_dnov_695
GATGGGGTGCTCCTTCTGGGGCCTCAAGCCTGAGTGGCTGCTGCTGGGCTGGTTCTCGTTTGCTTTCCAAGGACCTTTGT
GCCTTCCCCAACGGAGGCTTTTCCATCGAGTTCAGAAGGAGGTTGGAGTGGCTGACCTCACTTGGTTGGGGACAGAGGTA
TCCCAGTGGCTTCAGATTCTAGTGCTGTTCAATTGTGGGAACGGGATGAGAACGAGACACTCATTGTCAGGAAGTCCTGC
AAGTATAAGCACGAAGACACGTTTTCTACAGTCAGTGTCCTTACATCTGGCACACAGACTGTCAGCAGTAGCAAAGACTT
CTGCATTAAGGTTTGGGACCATGCTCAACAGACAGGTCTGAACTCACATCGAGCTCACTCTGGGCATGTCACCTATGTTG
CTTCTTCTCCTCACAAGGACTCTGTGTTCCTTTCATGCAGCAAGGACAATAGAATTTAACTCTGGGACACCCACTGTCCC
AAGCCAGCATCACAGATGGGCTGCACTGCCTTTGGTTTCCTTCCTACCTCACTGGCTTGGCATCCTTAGCACAGTGAAGC
CTTTGTCTTT

Alignment

ORF - retro_dnov_695 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.79 %
• Parental protein coverage: 56.14 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  DGSLLLG-ASSLSGRCWAGSLWL-FKDPCAAPNEGFCSAGVQTEAGVADLTW-VGDRGILVASDSGAVEL
          DG.LLLG.ASSLSG.CWAGS..L.F..P...P........VQ.E.GVADLTW.VGDRGI.VASDS.AV.L
Retrocopy DGVLLLG<ASSLSGCCWAGSRLL<FQGPLCLPQRRLFHR-VQKEVGVADLTW<VGDRGIPVASDSSAVQL

Parental  WELDENETLIVSKFCKYEHDDIVSAVSVLNSGTQAVSGSXXXXIKVWDLVQQTVLNSYRAHSGQVTCVAA
          WE.DENETLIV.K.CKY.H.D..S.VSVL.SGTQ.VS.S....IKVWD..QQT.LNS.RAHSG.VT.VA.
Retrocopy WERDENETLIVRKSCKYKHEDTFSTVSVLTSGTQTVSSSKDFCIKVWDHAQQTGLNSHRAHSGHVTYVAS

Parental  SPHEDAVFLSCSEDNRILLWDTRCPKPASQMGCTASGFLPTSLAWHPQQSEAFVF
          SPH.D.VFLSCS.DNRI.LWDT.CPKPASQMGCTA.GFLPTSLAWHP..SEAFVF
Retrocopy SPHKDSVFLSCSKDNRI*LWDTHCPKPASQMGCTAFGFLPTSLAWHP*HSEAFVF

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	10.31 RPM
SRP012922_cerebellum	0.00 RPM	17.18 RPM
SRP012922_heart	0.00 RPM	6.96 RPM
SRP012922_kidney	0.00 RPM	11.77 RPM
SRP012922_liver	0.00 RPM	5.42 RPM
SRP012922_lung	0.00 RPM	14.36 RPM
SRP012922_quadricep_muscle	0.00 RPM	14.54 RPM
SRP012922_spleen	0.00 RPM	19.34 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_695 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 13 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000014102	1 retrocopy	retro_btau_1342,
Choloepus hoffmanni	ENSCHOG00000013829	1 retrocopy	retro_chof_2618,
Callithrix jacchus	ENSCJAG00000013344	2 retrocopies	retro_cjac_1166, retro_cjac_3063,
Dasypus novemcinctus	ENSDNOG00000006521	1 retrocopy	retro_dnov_695 ,
Homo sapiens	ENSG00000116455	1 retrocopy	retro_hsap_2995,
Gorilla gorilla	ENSGGOG00000005208	1 retrocopy	retro_ggor_2076,
Macaca mulatta	ENSMMUG00000003311	1 retrocopy	retro_mmul_1917,
Mus musculus	ENSMUSG00000000561	1 retrocopy	retro_mmus_1120,
Nomascus leucogenys	ENSNLEG00000003918	1 retrocopy	retro_nleu_746,
Oryctolagus cuniculus	ENSOCUG00000007801	1 retrocopy	retro_ocun_535,
Pongo abelii	ENSPPYG00000001033	1 retrocopy	retro_pabe_2482,
Pan troglodytes	ENSPTRG00000001098	1 retrocopy	retro_ptro_2026,
Tupaia belangeri	ENSTBEG00000010325	1 retrocopy	retro_tbel_2253,