RetrogeneDB ID: retro_fcat_1087

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: C1:50486003..50486590(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NMRK1
• Ensembl ID: ENSFCAG00000028823
• Aliases: None
• Description: nicotinamide riboside kinase 1 [Source:HGNC Symbol;Acc:26057]

Sequence

>retro_fcat_1087
ATGAAAACATTTGTCATTGGAATTAGTGGTGTGACAAATGGCAGGAAGATAACACTGACTAAGAAACATCTCCCAAACTG
CAGGATCATATCTCAGGATGATTTCTTTAAGCCACAGTCTGAGATAGAGACAAATACAAATGGATTTCTGCAGTATGACA
TGCTTGAAGCACTTAATGTGGAAAAAATGTCCACCATTTCCTGCTGGATGAAAAGCCCAAGACACTCATTGGTATCAACA
GACTGTGGAAATGCTAAGGGATTTCCCATATTAATCACTGAAGGCTTCCTTCTCTTTAATTATAAGCCCCTGACACTCTA
TGGAACATAGGAGCTACTTTCTGACCACTCCATATGAAGAACGTTAAGGGGAGGAAGAGTACAAAGGTCTATGAGCCTCC
AAACCCTTCCAGGGTACTTGGATGGCCACGTGTGGCCCATCTATCTAAAGCACAGACAAGAAATGGAGACATCAGGTGGG
AAATGGTTTACCTAGGCAGAACAAAATCTGAAGAGGACTTCTTTCCACAAATGTATGAAGATCTACTATAAGAACTAGCA
AAGCAAAAGTGTTTGCAAGTAGCAACA

Alignment

ORF - retro_fcat_1087 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.47 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MKTFVVGISGVTNGGKTTLAKNLQKHLPNCSIISQDDFFKPESEIEIDANGFLQYDVLEALNMEKMMSTI
          MKTFV.GISGVTNG.K.TL.K...KHLPNC.IISQDDFFKP.SEIE...NGFLQYD.LEALN.EK.MSTI
Retrocopy MKTFVIGISGVTNGRKITLTK---KHLPNCRIISQDDFFKPQSEIETNTNGFLQYDMLEALNVEK-MSTI

Parental  SCWMESQGQSLASTDSGSAEEIPILIVEGFLLFNYKPL-DTLWN-RSYFLTIPYEECKRRRSTRVYEPPD
          SCWM.S...SL.STD.G.A...PILI.EGFLLFNYKPL.DTLWN....F........K.R.ST.VYEPP.
Retrocopy SCWMKSPRHSLVSTDCGNAKGFPILITEGFLLFNYKPL<DTLWNIGATF*PLHMKNVKGRKSTKVYEPPN

Parental  -TPGYFDGHVWPMYLKHRREM-AEITWEIVYLDGTKSEEDLFKEVYEDLIQELAKQKGLHVTT
          ..PGY.DGHVWP.YLKHR.EM...I.WE.VYL..TKSEED.F...YEDL..ELAKQK.L.V.T
Retrocopy >LPGYLDGHVWPIYLKHRQEM<GDIRWEMVYLGRTKSEEDFFPQMYEDLL*ELAKQKCLQVAT

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	8.26 RPM
SRP017611_kidney	0.00 RPM	8.35 RPM
SRP017611_liver	0.00 RPM	6.27 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1087 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1087 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 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000005312	1 retrocopy	retro_amel_664,
Felis catus	ENSFCAG00000028823	1 retrocopy	retro_fcat_1087 ,
Macropus eugenii	ENSMEUG00000009787	1 retrocopy	retro_meug_275,
Mustela putorius furo	ENSMPUG00000012337	1 retrocopy	retro_mputfur_634,
Pteropus vampyrus	ENSPVAG00000006121	1 retrocopy	retro_pvam_293,
Tupaia belangeri	ENSTBEG00000004063	2 retrocopies	retro_tbel_1021, retro_tbel_4275,
Tarsius syrichta	ENSTSYG00000004232	1 retrocopy	retro_tsyr_718,