RetrogeneDB ID: retro_dord_240

Retrocopy location

• Organism: Kangaroo rat (Dipodomys ordii)
• Coordinates: GeneScaffold_6424:9100..9530(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: Anp32a
• Ensembl ID: ENSDORG00000008611
• Aliases: None
• Description: acidic (leucine-rich) nuclear phosphoprotein 32 family, member A [Source:MGI Symbol;Acc:MGI:108447]

Sequence

>retro_dord_240
GAGCTTGTCTTGGACAGCTGCCAGGTGAACGAAGGCAAAACCCAGGGCCTCATAGACGAGTTCAAAGAACTAGGATTCTT
GAGTGCTATCAACATAGGCCTCACCTCTGGTACAAACTTAACCAAGGTTAAACAAACTTAAGCTTGAACTAAGCAATAAC
AGAATCACAGGGGGCCTGAAAGTATTGGCAGAAAAGTGTCCAAACCTTACGCATCTAAATTTAAGTGGCAGAAAAATTAA
AGACCTCCGCAGGATGGAGACACTGAAGAAGTTAGGGAACCTTAAAAGCTTAGACCTTTTCAACTGCGAGGTGACCAACC
TGAAGGACTACAGAGAAAGCATGTTTGAGCTCCTCCTGCCGCTCATGTACCTGGACGGCTACGATGGGGATGACAAGGAG
GCCCCCGACTCCAAGGGCTACTTGGAGGGC

Alignment

ORF - retro_dord_240 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.55 %
• Parental protein coverage: 63.2 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ELVLDNCRATEGKIDGLTDEFKELEFLSTINIGLASVANL-PKLNKLKKLELSDNRITGGLDVLAEKCPN
          ELVLD.C...EGK..GL.DEFKEL.FLS.INIGL.S..NL.P.LNKLK.LELS.NRITGGL.VLAEKCPN
Retrocopy ELVLDSCQVNEGKTQGLIDEFKELGFLSAINIGLTSGTNL>PRLNKLK-LELSNNRITGGLKVLAEKCPN

Parental  LTHLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRESVFELLPQLTYLDGYDRDDKEAPDSD
          LTHLNLSG.KIKDL...E.LKKL.NLKSLDLFNCEVTNL.DYRES.FELL..L.YLDGYD.DDKEAPDS.
Retrocopy LTHLNLSGRKIKDLRRMETLKKLGNLKSLDLFNCEVTNLKDYRESMFELLLPLMYLDGYDGDDKEAPDS-

Parental  AEGYVEG
          ..GY.EG
Retrocopy -KGYLEG

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_240 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.

---

Parental genes homology:

Parental genes homology involve 12 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002339	2 retrocopies	retro_cjac_3305, retro_cjac_3799,
Dipodomys ordii	ENSDORG00000008611	1 retrocopy	retro_dord_240 ,
Dipodomys ordii	ENSDORG00000011690	4 retrocopies	retro_dord_311, retro_dord_358, retro_dord_495, retro_dord_777,
Homo sapiens	ENSG00000140350	3 retrocopies	retro_hsap_1479, retro_hsap_3117, retro_hsap_48,
Gorilla gorilla	ENSGGOG00000015417	1 retrocopy	retro_ggor_1134,
Loxodonta africana	ENSLAFG00000022560	1 retrocopy	retro_lafr_679,
Macaca mulatta	ENSMMUG00000022717	1 retrocopy	retro_mmul_1985,
Nomascus leucogenys	ENSNLEG00000013347	2 retrocopies	retro_nleu_15, retro_nleu_2383,
Pongo abelii	ENSPPYG00000006595	2 retrocopies	retro_pabe_210, retro_pabe_2575,
Pan troglodytes	ENSPTRG00000007219	2 retrocopies	retro_ptro_2108, retro_ptro_758,
Rattus norvegicus	ENSRNOG00000045651	1 retrocopy	retro_rnor_1043,
Sarcophilus harrisii	ENSSHAG00000010906	1 retrocopy	retro_shar_540,