RetrogeneDB ID: retro_dnov_1123

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_15044:5857..6384(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM147
• Ensembl ID: ENSDNOG00000004059
• Aliases: None
• Description: transmembrane protein 147 [Source:HGNC Symbol;Acc:30414]

Sequence

>retro_dnov_1123
ATGCTGTTCCTGACCACCTTCCTTCCACCTGGGAAGGTGGCATCTATGACTTCATTTGTGAGTTCATAAAGGCCACTGTA
TATGTGGCCGACCTGATAGGCCTGAACCTTGTTTTGTCCTAAAATGCCAGCAAGGGGGAGTACAAGATCATGGTTGCTGT
CCTGTGCTGGGCTACCACTGAACTCATTATGTCCCGCTGTATCCCCCTCTGGGTCGGAGCCCAGGGTATTGAGTTTGACT
GGAAATACATCCAAATGAGCATTGACTCCAACATCAGTCTGGTCTGTTACATTGTGGCATCTGCCCAAGTCTGGATGATA
ACACGCTACGACCTCTACCACATCTTCCGGCTGGCAGTCCTCCTGCTAATGTTCCTTAGCATCTATAATGCCTTCGTCAT
GGAGACCCTCGTCCACCTGTGTTCCCTGGGCAGCAGCTGGACAGTACTGCTGGTCCGAACAGTGGTGACAGGGCTGCTGG
CCCTCAGCACCCTGGCCCTCTATGTTGCCATTGTCAACATGCACTCC

Alignment

ORF - retro_dnov_1123 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.88 %
• Parental protein coverage: 78.12 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MLFLATFFP-TWEGGIYDFIGEFMKATVDVADLIGLNLVMSRNAGKGEYKIMVAALGWATAELIMSRCIP
          MLFL.TF.P.TWEGGIYDFI.EF.KATV.VADLIGLNLV.S.NA.KGEYKIMVA.L.WAT.ELIMSRCIP
Retrocopy MLFLTTFLP<TWEGGIYDFICEFIKATVYVADLIGLNLVLS*NASKGEYKIMVAVLCWATTELIMSRCIP

Parental  LWVGARGIEFDWKYIQMSIDSNISLVHYIVAAAQVWMITRYDLYHTFRPAVLLLMFLSVYKAFVMETLVH
          LWVGA.GIEFDWKYIQMSIDSNISLV.YIVA.AQVWMITRYDLYH.FR.AVLLLMFLS.Y.AFVMETLVH
Retrocopy LWVGAQGIEFDWKYIQMSIDSNISLVCYIVASAQVWMITRYDLYHIFRLAVLLLMFLSIYNAFVMETLVH

Parental  LCSLG-SWTALLARAVVTGLLALSTLALYVAVVNVHS
          LCSLG.SWT.LL.R.VVTGLLALSTLALYVA.VN.HS
Retrocopy LCSLGSSWTVLLVRTVVTGLLALSTLALYVAIVNMHS

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	58.34 RPM
SRP012922_cerebellum	0.41 RPM	31.34 RPM
SRP012922_heart	1.39 RPM	38.75 RPM
SRP012922_kidney	1.10 RPM	82.14 RPM
SRP012922_liver	0.31 RPM	33.75 RPM
SRP012922_lung	1.68 RPM	51.93 RPM
SRP012922_quadricep_muscle	0.35 RPM	55.73 RPM
SRP012922_spleen	0.34 RPM	48.65 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_1123 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 10 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000010132	1 retrocopy	retro_acar_105,
Ailuropoda melanoleuca	ENSAMEG00000000375	1 retrocopy	retro_amel_1193,
Bos taurus	ENSBTAG00000015920	1 retrocopy	retro_btau_1546,
Canis familiaris	ENSCAFG00000006960	2 retrocopies	retro_cfam_1070, retro_cfam_1265,
Dasypus novemcinctus	ENSDNOG00000004059	1 retrocopy	retro_dnov_1123 ,
Felis catus	ENSFCAG00000006373	2 retrocopies	retro_fcat_1489, retro_fcat_224,
Myotis lucifugus	ENSMLUG00000016383	1 retrocopy	retro_mluc_1889,
Mustela putorius furo	ENSMPUG00000006709	1 retrocopy	retro_mputfur_588,
Tarsius syrichta	ENSTSYG00000008207	1 retrocopy	retro_tsyr_56,
Tursiops truncatus	ENSTTRG00000015114	2 retrocopies	retro_ttru_1406, retro_ttru_219,