RetrogeneDB ID: retro_dnov_1550

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_23286:529..991(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDNOG00000019203
• Aliases: None
• Description: None

Sequence

>retro_dnov_1550
AAATACAGTGCCCAGAGCAAGCGCCAGGCTCCAGTTCTTCAAACCAACAATGGTCCCAGTCTAACAGGATTGACTACTAA
AGCAGCCCACCTAGTCAAGAAAGCCAACAAAGGATATTTGCTTGGGAGTGTCACAGAAGAAAAAGCTATGGTGCAACAGT
GGTTAGAATACAGGGTAACTCAAGTTGACGGCCACTACAATAAAGATGATATCTGCACTCTGTTAAAGGATCTTAATTCA
TAGCTTGGAGACAAAGTTTACCTTACAGGTTATAACTTTACCTTAGCAGATACCCTACTGTACTACGGACTTCATCGCTT
TATAGTTGACCTGACAGTTCAAGAAAAGGAGAAATATCTTAATGGGTCTCACTGGTTTTGTCACATTCAGAATTACCCAG
GCATCAGGCACCATCTGTCTAGTATTGTCTTCATCAAGAACAGACTATATACCAATTCCCAT

Alignment

ORF - retro_dnov_1550 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.71 %
• Parental protein coverage: 88.51 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KYSAQGERQVPVLQTNHGPSLTGLTTIAAHLVKQANKEYLLGSTAEEKALVQQWLEYRVTQVDGHSSKDD
          KYSAQ..RQ.PVLQTN.GPSLTGLTT.AAHLVK.ANK.YLLGS..EEKA.VQQWLEYRVTQVDGH..KDD
Retrocopy KYSAQSKRQAPVLQTNNGPSLTGLTTKAAHLVKKANKGYLLGSVTEEKAMVQQWLEYRVTQVDGHYNKDD

Parental  IGTLLKDLNSYLEDKVYLTGYNFTLADILLYYGLHRFVVDLTVQEKEKYLNVSRWFCHIQHYPGIRQHLS
          I.TLLKDLNS.L.DKVYLTGYNFTLAD.LLYYGLHRF.VDLTVQEKEKYLN.S.WFCHIQ.YPGIR.HLS
Retrocopy ICTLLKDLNS*LGDKVYLTGYNFTLADTLLYYGLHRFIVDLTVQEKEKYLNGSHWFCHIQNYPGIRHHLS

Parental  SVVFIKNRLYTNSH
          S.VFIKNRLYTNSH
Retrocopy SIVFIKNRLYTNSH

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	14.59 RPM
SRP012922_cerebellum	0.00 RPM	28.59 RPM
SRP012922_heart	0.00 RPM	9.51 RPM
SRP012922_kidney	0.00 RPM	5.48 RPM
SRP012922_liver	0.00 RPM	5.26 RPM
SRP012922_lung	0.00 RPM	7.94 RPM
SRP012922_quadricep_muscle	0.00 RPM	10.39 RPM
SRP012922_spleen	0.00 RPM	9.39 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_1550 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 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017318	1 retrocopy	retro_amel_636,
Dasypus novemcinctus	ENSDNOG00000019203	1 retrocopy	retro_dnov_1550 ,
Erinaceus europaeus	ENSEEUG00000006156	1 retrocopy	retro_eeur_87,
Felis catus	ENSFCAG00000011622	1 retrocopy	retro_fcat_1075,
Macropus eugenii	ENSMEUG00000008960	1 retrocopy	retro_meug_1883,
Microcebus murinus	ENSMICG00000012636	1 retrocopy	retro_mmur_1404,
Myotis lucifugus	ENSMLUG00000007715	1 retrocopy	retro_mluc_1474,
Mustela putorius furo	ENSMPUG00000000588	1 retrocopy	retro_mputfur_486,
Pteropus vampyrus	ENSPVAG00000012305	2 retrocopies	retro_pvam_1374, retro_pvam_190,
Rattus norvegicus	ENSRNOG00000016390	5 retrocopies	retro_rnor_1682, retro_rnor_2013, retro_rnor_2132, retro_rnor_2133, retro_rnor_785,