RetrogeneDB ID: retro_dnov_386

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_4275:519696..520076(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HSPB11
• Ensembl ID: ENSDNOG00000000284
• Aliases: None
• Description: heat shock protein family B (small), member 11 [Source:HGNC Symbol;Acc:25019]

Sequence

>retro_dnov_386
ATGAGAAAAGTTGATCCCTGTTTGCATTCTGAAGGGTCTGAGGTGATTTTAGCAACATCAAGTGATGAAAAACACTTCCC
TGAAAATAGCTGATGGGAATCCAGAAACATTTTGGACCACCACAGGAACGTTTCCTCGGGAGTTCATTCTTTGTTTTCAC
AAACACGTAAGGATTGAGAAACTTGTAATTCAAAGTTACCTTGTGCAGACCCTGAGGATTAAAAAGAGCACATCTAAAGA
GCCCGTTGATTTTGAGCAATGGATTGAAAGAAATAGTACATACAGAGGGGCAGCTTCAAGATGAAGAAATTACTGCACAT
GACGGCTACGCCACTTACTTGACATTCATTATTAAATCAGCCTTTGATCATTTTGCATCT

Alignment

ORF - retro_dnov_386 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.47 %
• Parental protein coverage: 89.51 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MRKVDLCLSSEGAEVILATSSDE-KYPPENIIDGNPETFWTTTGMFPQEFILCFHKHVRIEKLVIQSYFV
          MRKVD.CL.SEG.E......S...K.....I.DGNPETFWTTTG.FP.EFILCFHKHVRIEKLVIQSY.V
Retrocopy MRKVDPCLHSEGSE-VILATSSD>KNTSLKIADGNPETFWTTTGTFPREFILCFHKHVRIEKLVIQSYLV

Parental  QTLRIEKSTSKEPVDFEQWIERDLVH-TEGQLQNEEII-AHDGYATYLRFIIISAFDHFAS
          QTLRI.KSTSKEPVDFEQWIER.......G.........AHDGYATYL.FII.SAFDHFAS
Retrocopy QTLRIKKSTSKEPVDFEQWIERNSTY<QRGSFKMKKLL<AHDGYATYLTFIIKSAFDHFAS

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	5.45 RPM
SRP012922_cerebellum	0.00 RPM	6.05 RPM
SRP012922_heart	0.00 RPM	6.96 RPM
SRP012922_kidney	0.27 RPM	6.57 RPM
SRP012922_liver	0.00 RPM	2.48 RPM
SRP012922_lung	0.00 RPM	5.65 RPM
SRP012922_quadricep_muscle	0.00 RPM	1.21 RPM
SRP012922_spleen	0.00 RPM	2.17 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_386 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 4 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000000284	3 retrocopies	retro_dnov_2439, retro_dnov_386 , retro_dnov_514,
Rattus norvegicus	ENSRNOG00000010241	2 retrocopies	retro_rnor_849, retro_rnor_850,
Ictidomys tridecemlineatus	ENSSTOG00000002643	1 retrocopy	retro_itri_1217,
Tarsius syrichta	ENSTSYG00000012499	2 retrocopies	retro_tsyr_1813, retro_tsyr_697,