RetrogeneDB ID: retro_dord_529

Retrocopy location

• Organism: Kangaroo rat (Dipodomys ordii)
• Coordinates: scaffold_2741:67949..68334(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSDORG00000001996
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: Naa10
• Ensembl ID: ENSDORG00000002753
• Aliases: None
• Description: N(alpha)-acetyltransferase 10, NatA catalytic subunit [Source:MGI Symbol;Acc:MGI:1915255]

Sequence

>retro_dord_529
ATGAACATCCGCAATGCTCGGCCGGATGACCTGATGAACATGCAACACTGCAACCTCCTGTGCCTCCCCGAGAACTATCA
GATGAAGTACTACTTCTACCACGGCCTCTCCTGGCCGCAGCTCTCCTACATCGCCGAAGACGAGCACGGCAAGATCGTGG
GCTACGTCCTGGTCCAAAATGGAGGAGGACCCCGATGATGTCCCCCACGGACACATCACCTCGCTGGCAGTGAAGCGCTC
GCACCGGCGCCTCGGCCTGGCCCAGAAGCTTATGGACCAGGCCTCCCGGGCCATGATCGAGAACTTTAGCGCCAAGTACG
TGTCCCTGCACGTCAGGAAGAGCAACCGGGCGGCCTTGCACCTCTATTCCAACACCCTCAACTTT

Alignment

ORF - retro_dord_529 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.12 %
• Parental protein coverage: 54.94 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MNIRNARPEDLMNMQHCNLLCLPENYQMKYYFYHGLSWPQLSYIAEDENGKIVGYVL-AKMEEDPDDVPH
          MNIRNARP.DLMNMQHCNLLCLPENYQMKYYFYHGLSWPQLSYIAEDE.GKIVGYVL..KMEEDPDDVPH
Retrocopy MNIRNARPDDLMNMQHCNLLCLPENYQMKYYFYHGLSWPQLSYIAEDEHGKIVGYVL>SKMEEDPDDVPH

Parental  GHITSLAVKRSHRRLGLAQKLMDQASRAMIENFNAKYVSLHVRKSNRAALHLYSNTLNF
          GHITSLAVKRSHRRLGLAQKLMDQASRAMIENF.AKYVSLHVRKSNRAALHLYSNTLNF
Retrocopy GHITSLAVKRSHRRLGLAQKLMDQASRAMIENFSAKYVSLHVRKSNRAALHLYSNTLNF

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_529 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 15 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000018457	1 retrocopy	retro_amel_162,
Bos taurus	ENSBTAG00000047702	1 retrocopy	retro_btau_177,
Canis familiaris	ENSCAFG00000019415	1 retrocopy	retro_cfam_167,
Callithrix jacchus	ENSCJAG00000014506	1 retrocopy	retro_cjac_132,
Cavia porcellus	ENSCPOG00000011495	1 retrocopy	retro_cpor_10,
Dipodomys ordii	ENSDORG00000002753	1 retrocopy	retro_dord_529 ,
Equus caballus	ENSECAG00000015203	1 retrocopy	retro_ecab_717,
Felis catus	ENSFCAG00000028705	1 retrocopy	retro_fcat_51,
Macropus eugenii	ENSMEUG00000006054	2 retrocopies	retro_meug_1787, retro_meug_554,
Myotis lucifugus	ENSMLUG00000014267	1 retrocopy	retro_mluc_152,
Mustela putorius furo	ENSMPUG00000008989	1 retrocopy	retro_mputfur_1424,
Pteropus vampyrus	ENSPVAG00000000463	1 retrocopy	retro_pvam_1225,
Sarcophilus harrisii	ENSSHAG00000005952	1 retrocopy	retro_shar_362,
Sus scrofa	ENSSSCG00000012791	1 retrocopy	retro_sscr_987,
Tursiops truncatus	ENSTTRG00000007455	1 retrocopy	retro_ttru_198,