RetrogeneDB ID: retro_dord_354

Retrocopy location

• Organism: Kangaroo rat (Dipodomys ordii)
• Coordinates: scaffold_13479:11193..11373(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDORG00000008443
• Aliases: None
• Description: None

Sequence

>retro_dord_354
AAACGTGAGCTCAGGAAGGAAATTCAGAAGTTGGGACAAGGATACGAAAAGATCTTCGAGTTGCTTGAAGAAATGCAAGG
AACTCTGGAGCTTAAGAAAGAACTCGTTGAATATGCTATCAATGAGATGAAAAGATTCAAAAGCCGAGAGCTAATTAAAC
ACTTTGAACACACACTGAAA

Alignment

ORF - retro_dord_354 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.33 %
• Parental protein coverage: 50.42 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RREIKKEIQKWARGYERIFQLLEQIEGPLEVKKEIVEYAIKKAIRFNCRDLVKNLEKTLK
          .RE..KEIQK...GYE.IF.LLE...G.LE.KKE.VEYAI....RF..R.L.K..E.TLK
Retrocopy KRELRKEIQKLGQGYEKIFELLEEMQGTLELKKELVEYAINEMKRFKSRELIKHFEHTLK

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Dipodomys ordii was not studied using RNA-Seq expression data.

ChIP-Seq

Dipodomys ordii was not studied using ChIP-Seq data.

EST

Dipodomys ordii was not studied using EST data.

TSS

Dipodomys ordii was not studied using FANTOM5 data.

Lab

retro_dord_354 was not experimentally validated.

Homology

Retrocopy orthology:

Dipodomys ordii 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 8 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000014436	2 retrocopies	retro_cfam_441, retro_cfam_444,
Callithrix jacchus	ENSCJAG00000004135	1 retrocopy	retro_cjac_1827,
Dipodomys ordii	ENSDORG00000008443	1 retrocopy	retro_dord_354 ,
Homo sapiens	ENSG00000242284	1 retrocopy	retro_hsap_3362,
Macaca mulatta	ENSMMUG00000021984	1 retrocopy	retro_mmul_2100,
Nomascus leucogenys	ENSNLEG00000002303	1 retrocopy	retro_nleu_961,
Pongo abelii	ENSPPYG00000020755	1 retrocopy	retro_pabe_2766,
Pan troglodytes	ENSPTRG00000041730	1 retrocopy	retro_ptro_2285,