RetrogeneDB ID: retro_fcat_1290

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: C2:98756853..98757354(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MCUR1
• Ensembl ID: ENSFCAG00000005972
• Aliases: None
• Description: mitochondrial calcium uniporter regulator 1 [Source:HGNC Symbol;Acc:21097]

Sequence

>retro_fcat_1290
ATATCTGCATTCGAGTAGATCATATATGACAACAACAATGTCATCCACAAAGATGTGATCACCAAAACGCAGCAGATGGC
TTTTCAGAAAATGTCTGAGATTGCTGCTCTGGAAAAGGATATGATTATTTTGTAGAAGAGTAAGTTTTCAGCCCACAAAG
CAGAAAATGAGAAAAATAAAACTTGAATGATATTCGCTAAAACAGCAAGTAATGGATGAAGTGATCAAAGTCCAAATAGA
TGAAAACTTAAACTTCAATCTAGGGGAAGAACAGCATTAAAAAGTATTATATTCACAGAATAAAGAGAAGCTATGTAAAA
TGAGGGCAAAAAAGGTAAGTTTGCACATCCAGCAAGATGAGGCTCTCACCTGGATGCCAAGGAGGAATGCATTGAGGGTG
CTGGCCTTGGAGCCTTGTAGGAATCAAACAGACTTTATAATATTAGATATTTATCAGCATCTGTGTTTACACCCACAACA
GCTCTGGGATTGCATTGGCTA

Alignment

ORF - retro_fcat_1290 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.16 %
• Parental protein coverage: 73.8 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VSALVKITDANMDIVYKDMVTKMQQEITVQQIMSQIANVKKDMVILEKSEFSALRAENEK-INLELHRLK
          .SA...I...N.....KD..TK.QQ.....Q.MS.IA...KDM.IL.KS.FSA..AENEK.I.LE...LK
Retrocopy ISAFE*IIYDNNNVIHKDVITKTQQ--MAFQKMSEIAALEKDMIIL*KSKFSAHKAENEK>IKLE*YSLK

Parental  QQVMDEVVKVRTDTKLEFNL-EKSRVKELYSLNERKLLEMRTEMVALHAQQDRAVTQTDRKIDTEV-AGL
          QQVMDEV.KV..D..L.FNL.E....K.LYS.N..KL..MR...V.LH.QQD.A.T...R.....V.AGL
Retrocopy QQVMDEVIKVQIDENLNFNLGEEQH*KVLYSQNKEKLCKMRAKKVSLHIQQDEALTWMPRRNALRV<AGL

Parental  KTMLESHKLDNIKYLAGSVFTCLTVALGFYRL
          ....ES..L.NI.YL..SVFT..T.ALG...L
Retrocopy GAL*ESNRLYNIRYLSASVFT-PTTALGLHWL

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
SRP017611_brain	0.00 RPM	13.66 RPM
SRP017611_kidney	0.00 RPM	11.85 RPM
SRP017611_liver	0.00 RPM	15.47 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1290 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1290 was not experimentally validated.

Homology

Retrocopy orthology:

Felis catus 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 17 parental genes, and 27 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000000395	2 retrocopies	retro_amel_1628, retro_amel_473,
Canis familiaris	ENSCAFG00000009857	3 retrocopies	retro_cfam_1018, retro_cfam_1556, retro_cfam_823,
Callithrix jacchus	ENSCJAG00000016050	1 retrocopy	retro_cjac_2522,
Cavia porcellus	ENSCPOG00000014899	1 retrocopy	retro_cpor_934,
Equus caballus	ENSECAG00000009150	2 retrocopies	retro_ecab_273, retro_ecab_469,
Felis catus	ENSFCAG00000005972	3 retrocopies	retro_fcat_1290 , retro_fcat_1405, retro_fcat_1538,
Homo sapiens	ENSG00000050393	1 retrocopy	retro_hsap_1795,
Gorilla gorilla	ENSGGOG00000002632	1 retrocopy	retro_ggor_1320,
Loxodonta africana	ENSLAFG00000003287	2 retrocopies	retro_lafr_1252, retro_lafr_870,
Microcebus murinus	ENSMICG00000000183	2 retrocopies	retro_mmur_280, retro_mmur_580,
Myotis lucifugus	ENSMLUG00000010975	1 retrocopy	retro_mluc_1574,
Mustela putorius furo	ENSMPUG00000000698	1 retrocopy	retro_mputfur_640,
Nomascus leucogenys	ENSNLEG00000000914	1 retrocopy	retro_nleu_2768,
Otolemur garnettii	ENSOGAG00000013458	3 retrocopies	retro_ogar_1587, retro_ogar_1819, retro_ogar_3178,
Pan troglodytes	ENSPTRG00000017740	1 retrocopy	retro_ptro_1200,
Tarsius syrichta	ENSTSYG00000012562	1 retrocopy	retro_tsyr_810,
Tursiops truncatus	ENSTTRG00000012874	1 retrocopy	retro_ttru_1597,