RetrogeneDB ID: retro_dnov_1682

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_26541:2451..2825(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BCL7A
• Ensembl ID: ENSDNOG00000013429
• Aliases: None
• Description: B-cell CLL/lymphoma 7A [Source:HGNC Symbol;Acc:1004]

Sequence

>retro_dnov_1682
GCAGACGCCTCCCGCGTCAAGCTGGAGAAGGGCCGCAACTGCAGCCCCGCCAGAGCCCAGCTCTGACACCGAGGCCCAGG
CGACGAGGCCCAGGGCAACCGGAAGGAACACCCTGGGGCCGAGGACGCTTCCGACAGCAGCGCTCACAGTCTTCGATGGA
AAACTCGAACCGTTCAGAGAAGGGAGAAAGGCAGTCGTCCGGAGAGGCGGGTCGGGCCGCAGAGACGACAGTCTCTCAGG
TGCCTCGATCAAGGCCTCAGGGGGACAGCCACCCCGGCCGGGAGCCCGCTGGGTTGTCGGGGGATTTCGAAGAAGGAGTG
CCGCCCTCTAAAAAGATGAAGCTGGAGACTTCTCAACAAAACTCCGAAGAGATG

Alignment

ORF - retro_dnov_1682 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.57 %
• Parental protein coverage: 65.13 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  ADASPIKQENSSN-SSPAPDPSSATHVEAKA-DEAQGDGKEHPGAEDASD-EQNSQSSMDNSNSSEKGER
          ADAS..K.E...N...P.P.PSS.T..EA.A.DEAQG..KEHPGAEDASD..Q.SQSSM.NSN.SEKGER
Retrocopy ADASRVKLEKGRN>AAP-PEPSSDT--EAQA<DEAQGNRKEHPGAEDASD<QQRSQSSMENSNRSEKGER

Parental  QLSGEAGLAAETSLSQVPRSRPQRGSQPGREPVGLSGDF-EGVPPSKKMKLETSQQNSEEM
          Q.SGEAG.AAET..SQVPRSRPQ..S.PGREP.GLSGDF.EGVPPSKKMKLETSQQNSEEM
Retrocopy QSSGEAGRAAETTVSQVPRSRPQGDSHPGREPAGLSGDFEEGVPPSKKMKLETSQQNSEEM

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	3.69 RPM
SRP012922_cerebellum	0.00 RPM	14.85 RPM
SRP012922_heart	0.00 RPM	6.03 RPM
SRP012922_kidney	0.00 RPM	4.93 RPM
SRP012922_liver	0.00 RPM	2.32 RPM
SRP012922_lung	0.00 RPM	5.80 RPM
SRP012922_quadricep_muscle	0.00 RPM	10.39 RPM
SRP012922_spleen	0.00 RPM	5.84 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_1682 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 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000003035	1 retrocopy	retro_dnov_576,
Dasypus novemcinctus	ENSDNOG00000013429	1 retrocopy	retro_dnov_1682 ,
Loxodonta africana	ENSLAFG00000007425	1 retrocopy	retro_lafr_617,
Macropus eugenii	ENSMEUG00000013687	2 retrocopies	retro_meug_1658, retro_meug_611,
Oryctolagus cuniculus	ENSOCUG00000000630	1 retrocopy	retro_ocun_1504,