RetrogeneDB ID: retro_fcat_10

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B2:2022127..2023339(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFCAG00000028547
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: NKAP
• Ensembl ID: ENSFCAG00000004392
• Aliases: None
• Description: NFKB activating protein [Source:HGNC Symbol;Acc:29873]

Sequence

>retro_fcat_10
ATGGCCCCGGTGTCCCAGTCCCGCTATCCCGAGGACGCCGCCGGCTCTCGGAGGCGGCGACGCAGCTCTGTGGGGAGCCC
GCCGTCCGCGCTGGCCAGACGCTTCCCTTGTGGAGGCCGCTCCCGCCCTCACTCCCGCGGCCGCGAGGGCCTCAGGCCTT
CGTGGGGGGTGTCGGGCGTTGGCGACCCGAGTCCGCTGGGCCGATCTGAGTCTCGGGCACAGCCTTCGGGGCCCCGCAAC
TACGCGTTCTCGTCCTCTTCCGTCCACGCTGGCGGATACCGCTTCCATCACCACCACTATGCGGGCGACCTGCAGTGGGC
CAAAGAGTATGAGAAGGAGAAGGAGGAGAGCTATCGTCAGAGGTGGCTGAAAGAGAGAGAGAGGATTGGGGAGCTGGGAG
CTCCTGAGGTGTGGGGGCTCTCTCCAAAGTTTCCTGAGCCGGATTCTGATGAACATACCCCAGTGGAGGATGAAGAGGTA
AAGAGTCAGGAGACCAGCAGTTCAGATTCCAGCTCCGAAGAAAACGGGAATACCAGTCGTTCAAAAAGCAAGAAAAAAAG
AAAGAAAAAGTCTAAAACGAAACATAGGAAACATTCTGATAATAGTGAGAGTAATTCAGACTCCGACATTAATTCTAGTT
CTGATGATAAAAAGAGGGCCAAAAAAGCCAAGAAGAGGGAAAAGAAGAAGAAACACAGGGCAAAAAGAACCAAGAAAAAG
AAGAATAAGAAGACTAAGAAAGAATCCAGTGACTCCAGCTTTAAAGATTCAGAAGGGGAGTTGCCGGAAGATACCTGGAT
TGAGCAGTCAAAGATTACAGATACCATGGATCTAATAGGCCCAGAAGCACCTGTAATACATATCTCTCAAGATGAGAAAC
CTTTGAACTATGGCCATGCTCTGCTCCCAGGTGAAGGTGCAGCAATGGCTGAGTATGTGAAAGCTGGAAAGCGAATCCCA
CGAAGAGGTGAAATTGGGCTGACAAGTGAAGAGATTGCTTCATTTGAATGCTCAGGTTATGTCATGAGTGGTAGCAGGCA
TCGTAGAATGGAGGCTGTACGACTGCGTAAAGAGAACCAGATCTACAGTGCTGATGAGAAGAGAGCTCTTGCATCCTTTA
ACCAAGAAGAAAGACGAAAGAGAGAGAATAAGATGCTAGCCAGTTTCCGAGAGATGGTGTACAGAAAGACAAGAGGGAAA
GATGACAAGTAA

Alignment

ORF - retro_fcat_10 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.39 %
• Parental protein coverage: 81.04 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RSRSRERPSAPRGSLFTSASSTAY-YGGYSRPYGSDKPWPSLLDKEREESLRQKRLSERERIGELGAPEV
          RS.SR..PS.PR...F.S.S..A..Y......Y..D..W.....KE.EES.RQ..L.ERERIGELGAPEV
Retrocopy RSESRAQPSGPRNYAFSSSSVHAGGYRFHHHHYAGDLQWAKEYEKEKEESYRQRWLKERERIGELGAPEV

Parental  WGLSPKNPEPDSDEHTPVEDDEPKKSTTSASTSEEEKKKKKKRKSSHSKERSKKKRKKKSSKRKRKKYSD
          WGLSPK.PEPDSDEHTPVED.E.K....S..TS............S.SK..SKKKRKKKS....RK....
Retrocopy WGLSPKFPEPDSDEHTPVEDEEVK----SQETSSSDSSSEENGNTSRSK--SKKKRKKKSKTKHRKHSDN

Parental  SDSDSDSETDSSDEDTKRRGKKAKKKEKKKKHRSKKYKKKKSKKNRKDSSDSSSKDSQEEFLENPWKDRS
          S.S.SDS...SS..D.K.R.KKAKK.EKKKKHR.K..KKKK.KK..K.SSDSS.KDS..E..E..W...S
Retrocopy SESNSDSDINSSSDD-KKRAKKAKKREKKKKHRAKRTKKKKNKKTKKESSDSSFKDSEGELPEDTWIEQS

Parental  KPEEPSDLIGPEAPKTLASQDDKPLNYGHALLPGEGAAMAEYVKAGKRIPRRGEIGLTSEEIASFECSGY
          K.....DLIGPEAP....SQD.KPLNYGHALLPGEGAAMAEYVKAGKRIPRRGEIGLTSEEIASFECSGY
Retrocopy KITDTMDLIGPEAPVIHISQDEKPLNYGHALLPGEGAAMAEYVKAGKRIPRRGEIGLTSEEIASFECSGY

Parental  VMSGSRHRRMEAVRLRKENQIYSADEKRALASFNQEERRKRENKILASFREMVYRKTKGKDDK
          VMSGSRHRRMEAVRLRKENQIYSADEKRALASFNQEERRKRENK.LASFREMVYRKT.GKDDK
Retrocopy VMSGSRHRRMEAVRLRKENQIYSADEKRALASFNQEERRKRENKMLASFREMVYRKTRGKDDK

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	1.15 RPM	7.92 RPM
SRP017611_kidney	0.21 RPM	9.28 RPM
SRP017611_liver	0.00 RPM	5.66 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_10 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_10 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 15 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000018433	1 retrocopy	retro_cfam_172,
Dasypus novemcinctus	ENSDNOG00000000072	1 retrocopy	retro_dnov_50,
Echinops telfairi	ENSETEG00000001007	1 retrocopy	retro_etel_1882,
Felis catus	ENSFCAG00000004392	1 retrocopy	retro_fcat_10 ,
Homo sapiens	ENSG00000101882	1 retrocopy	retro_hsap_15,
Loxodonta africana	ENSLAFG00000002962	1 retrocopy	retro_lafr_37,
Macaca mulatta	ENSMMUG00000012382	1 retrocopy	retro_mmul_121,
Mus musculus	ENSMUSG00000016409	1 retrocopy	retro_mmus_279,
Nomascus leucogenys	ENSNLEG00000014922	1 retrocopy	retro_nleu_88,
Otolemur garnettii	ENSOGAG00000001004	1 retrocopy	retro_ogar_239,
Pongo abelii	ENSPPYG00000020679	1 retrocopy	retro_pabe_198,
Pan troglodytes	ENSPTRG00000022233	1 retrocopy	retro_ptro_117,
Rattus norvegicus	ENSRNOG00000031169	1 retrocopy	retro_rnor_93,
Sus scrofa	ENSSSCG00000012613	1 retrocopy	retro_sscr_13,
Ictidomys tridecemlineatus	ENSSTOG00000001134	1 retrocopy	retro_itri_73,