RetrogeneDB ID: retro_dnov_779

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_106596:4720..5077(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C11orf31
• Ensembl ID: ENSDNOG00000025100
• Aliases: None
• Description: chromosome 11 open reading frame 31 [Source:HGNC Symbol;Acc:18251]

Sequence

>retro_dnov_779
ATGGCTTCCCGCGGGAGAAAACGGAAGGCTGAGGCAGCGGTGGCTGCGGCCGCCAAAAAGCAGGAGAAGCAGGCAAGCAG
CGAAGGGGCAGTGGAGGAGGCGGTAGTCGTTATCGAGCATTGTACGAGCTGACGGGTCTACAGGCACAACGCCGCGGCCT
TGAGCCAGGCGCTGCGTCTGGAGGTCCCGGAACTTTCCGTGAAGGTGAAGCCTTCACGGGGAAGCTTCGAGGTGATGCTG
CAGTGTCCCGACGGCAGCAGTGTGGAGCTCTGGACTGGGATTAAGAAGGGGCCTCCCCGTAAACTCAAATTTCCTGAGCC
CCAAAAGGTGGTGGAAGAGCTGAAGAAGTACCTTTCA

Alignment

ORF - retro_dnov_779 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.79 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MASRGRKRKAEAAEAVAAAKQ-KLACGEGGVEEAVVVIEH----RVYGRNAAALSQALRLEAPEVSVKVN
          MASRGRKRKAEAA.A.AA.KQ.K.A..EG.VEEAVVVIEH....RVY..NAAALSQALRLE.PE.SVKV.
Retrocopy MASRGRKRKAEAAVAAAAKKQEKQASSEGAVEEAVVVIEHCTS*RVYRHNAAALSQALRLEVPELSVKV-

Parental  PTKPRRGSFEVMLQCPDGSSAELWTGIKKGPPRKLKFPEPQKVVEELKKYLS
          ..KP.RGSFEVMLQCPDGSS.ELWTGIKKGPPRKLKFPEPQKVVEELKKYLS
Retrocopy --KPSRGSFEVMLQCPDGSSVELWTGIKKGPPRKLKFPEPQKVVEELKKYLS

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	7.00 RPM	37.34 RPM
SRP012922_cerebellum	5.09 RPM	25.71 RPM
SRP012922_heart	1.39 RPM	12.99 RPM
SRP012922_kidney	9.86 RPM	41.34 RPM
SRP012922_liver	4.02 RPM	20.59 RPM
SRP012922_lung	5.19 RPM	32.84 RPM
SRP012922_quadricep_muscle	5.37 RPM	15.92 RPM
SRP012922_spleen	10.07 RPM	39.95 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_779 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000025100	1 retrocopy	retro_dnov_779 ,
Tupaia belangeri	ENSTBEG00000002977	1 retrocopy	retro_tbel_2669,