RetrogeneDB ID: retro_dnov_2363

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_67498:6340..6694(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDNOG00000019514
• Aliases: None
• Description: None

Sequence

>retro_dnov_2363
ATGAAAGATCCAAGTCACAGTAGTACTAGCCCAAGCATCATCAATGAAGATGTGATTATTAACAGGCATTCTCATGAAGA
TGACAATCCATTTGCAGAGTACATGTGAATGGAAAATGAAGAATTCAACAGACAAACAGAAGAGTTGTGGGAAGAAGAAT
TTACTGAACACTGTTTCCAAGAAATGCTGAATGAGGAAGAACATGAGTGGTTGATTTCAGCTCAAGATCTCCCACGAACT
ATGGACCAAATTCAGGACTAATTTAATGACCTCATTACTAGTGATGGCTCTTCTCTGGAAGATCTTGTGGTCAAGAGCAA
TATGAATCCTAATGCAAAGGAGTTTGTTCTGGGG

Alignment

ORF - retro_dnov_2363 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.72 %
• Parental protein coverage: 97.56 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MNGSSVASTSPSVKSKEDQGVNGHD-EKENPFAEYMWMENEEDFNRQVEEELQEQDFLDRCFQEMLDEED
          M...S..STSPS....ED...N.H..E..NPFAEYM.MENEE.FNRQ.EE.L.E..F...CFQEML.EE.
Retrocopy MKDPSHSSTSPSIIN-EDVIINRHSHEDDNPFAEYM*MENEE-FNRQTEE-LWEEEFTEHCFQEMLNEEE

Parental  QDWFIPSRDLPRAMGQLQQQLNGLSVSESHDSEDILSKSNLNPDAKEFIPG
          ..W.I...DLPR.M.Q.Q...N.L..S.....ED...KSN.NP.AKEF..G
Retrocopy HEWLISAQDLPRTMDQIQD*FNDLITSDGSSLEDLVVKSNMNPNAKEFVLG

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	0.39 RPM	5.25 RPM
SRP012922_cerebellum	0.14 RPM	4.40 RPM
SRP012922_heart	0.23 RPM	16.71 RPM
SRP012922_kidney	0.00 RPM	7.94 RPM
SRP012922_liver	0.15 RPM	10.99 RPM
SRP012922_lung	0.00 RPM	4.58 RPM
SRP012922_quadricep_muscle	0.00 RPM	23.71 RPM
SRP012922_spleen	0.11 RPM	6.75 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_2363 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 1 parental gene, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000019514	3 retrocopies	retro_dnov_2363 , retro_dnov_291, retro_dnov_292,