RetrogeneDB ID: retro_fcat_1177

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: C1:42810806..42812085(-)
• Located in intron of: ENSFCAG00000007737

Retrocopy information

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

Parental gene information

• Parental gene symbol: HSP90AB1
• Ensembl ID: ENSFCAG00000009764
• Aliases: None
• Description: heat shock protein 90kDa alpha (cytosolic), class B member 1 [Source:HGNC Symbol;Acc:5258]

Sequence

>retro_fcat_1177
CCCAGTCCCAAGGAACATAACGCTGACTCTGGTGGACACAGGCTGGCATAACCAAAGCTGACCTCATAAGTAATTTGGGA
ACCATTGCCAAGTCAGGTACTAAAGCATTTACGGAGGCTCTTTAGGCTGGTGCAGACATCGCCATGATTGGACAGTTTGG
TGTTGGCTTTTATTCTGCCTCCCTGGTAGCAGAGAAAGTGGTTGTGATCACAAAGCACAATGATGATGAGCAGTATGCTT
GGGAATCTTCTGCTGGAGGCTCCTTCACTGTACATGCAGACCATGGTGAGCCCATTGGCTAGGCTACCGAAGTGATCCTC
TACTTTAAGACCGGACACAGTACTGCGGAGAGTCAGGTCAAAGAAGTGGTGAAGAAGCACTCACAGTTCATAGGTTATGT
TATCACCCTTTATTTGGAGAAGGAACAAGAGAGAGAAATCATTGATAATGAGGCAGAGGAAGAGAAAGGTGAGAAAGAAG
ATAAGGATAATGAGGGGAAGCCAAAGACTGGAGATGTAGGCTCAGATGAGGAGGATGATAGCAGGAAGGACAACAAAAAG
AAAATAAGACTTAGGAGAAATATATTTGTCGGGAAGAACTGAACAAGACTAAGCCCATTTGGACCATAAACCTGATGATA
CCACCCAGGAGGAATATGCAGAGTTCTACAAGAGCCTTACCAATGACTGGGAAGACCGCTTGGTAATCAAGCACTTACCT
CTAGAAGATGAATTGGAATTCAGAGCATTGCTGTTCATCCCCTATTGGGCTCCTTTTGACCTCCGAAAGCAAGAGTAAAA
AGAAAAATAACAAATTCTCCATCTGCCATCTGTTCATTATGAACAGCTGTGATGAGTTGCTATGGGAGTATCTCAACTTC
ATCCATGGTTGTGGTTGCCTCTGAGTACCTGCCCCTCAACATCTCCGGAGAATGCAGCAGAGCAAAATCTCGAAGGTCAT
TTGCAAAAGCATTGTCAATAAGTGCCTTGAGTTCTTCTCTGAGCTGGCAGAAGACAAGGAGAATTATAAGAAACTGTATG
AGCCAATCTCTAAAAAGTTAAAACTTGGAATCCTTCGAGACTTGACTAATTGGCAACTCCTTTCCGAGCTGCTGCACTGT
CACACCTCCCAGTCTAGAGATGAGGTGAGTTCTCTGTCAAAATATGTCTCTCACATGAAGGAGACCCAGAAGTCCATCTG
TTACATCACTGGTGAGAACAAAGAGCAGGTTGTCAACTCTGCTCTTGTGGAGCAAATGTGGAAGCAGGGCTTCAAGGTA

Alignment

ORF - retro_fcat_1177 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.14 %
• Parental protein coverage: 59.94 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  PNPQERTLT-LVDTGIGMTKADLINNLGTIAKSGTKAFMEALQAGADISMIGQFGVGFYSAYLVAEKVVV
          P.P.E.....L..T..G.TKADLI.NLGTIAKSGTKAF.EAL.AGADI.MIGQFGVGFYSA.LVAEKVVV
Retrocopy PSPKEHNAD<LWWTQAGITKADLISNLGTIAKSGTKAFTEAL*AGADIAMIGQFGVGFYSASLVAEKVVV

Parental  ITKHNDDEQYAWESSAGGSFTVRADHGEPIGRGTKVILHLKEDQTEYLEERRVKEVVKKHSQFIGYPITL
          ITKHNDDEQYAWESSAGGSFTV.ADHGEPIG..T.VIL..K........E..VKEVVKKHSQFIGY.ITL
Retrocopy ITKHNDDEQYAWESSAGGSFTVHADHGEPIG*ATEVILYFKTGHST--AESQVKEVVKKHSQFIGYVITL

Parental  YLEKEREKEISDDEAEEEKGEKEEEDKDDEEKPKIEDVGSDEEDDSGKDKKKKTKKIK-EKYIDQEELNK
          YLEKE.E.EI.D.EAEEEKGEKE..DKD.E.KPK..DVGSDEE.D......KK......EKYI..EELNK
Retrocopy YLEKEQEREIIDNEAEEEKGEKE--DKDNEGKPKTGDVGSDEE-DDSRKDNKKKIRLR<EKYICREELNK

Parental  TKPIWTRN-PDDITQEEYGEFYKSLTNDWEDHLAVKHFSVEGQLEFRALLFIPRRAPFDLFENK-KKKNN
          TKPIWT.N.PDD.TQEEY.EFYKSLTNDWED.L..KH...E..LEFRALLFIP..APFDL.....KKKNN
Retrocopy TKPIWTIN<PDDTTQEEYAEFYKSLTNDWEDRLVIKHLPLEDELEFRALLFIPYWAPFDLRKQE>KKKNN

Parental  IKLYVRRVFIMDSCDELIPEYLNFIRG-VVDSEDLPLNIS-REMLQQSKILKVIRKNIVKKCLELFSELA
          .K......FIM.SCDEL..EYLNFI.G.VV.SE.LPLNIS.R.M.Q.SKI.KVI.K.IV.KCLE.FSELA
Retrocopy -KFSICHLFIMNSCDELLWEYLNFIHG>VVASEYLPLNIS<RRMQQ-SKISKVICKSIVNKCLEFFSELA

Parental  EDKENYKKFYEAFSKNLKLGIHEDSTNRRRLSELLRYHTSQSGDEMTSLSEYVSRMKETQKSIYYITGES
          EDKENYKK.YE..SK.LKLGI..D.TN...LSELL..HTSQS.DE..SLS.YVS.MKETQKSI.YITGE.
Retrocopy EDKENYKKLYEPISKKLKLGILRDLTNWQLLSELLHCHTSQSRDEVSSLSKYVSHMKETQKSICYITGEN

Parental  KEQVANSAFVERVRKRGFEV
          KEQV.NSA.VE...K.GF.V
Retrocopy KEQVVNSALVEQMWKQGFKV

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	71.73 RPM
SRP017611_kidney	0.93 RPM	46.27 RPM
SRP017611_liver	0.81 RPM	45.69 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1177 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1177 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 11 parental genes, and 25 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000001981	4 retrocopies	retro_cfam_1108, retro_cfam_411, retro_cfam_562, retro_cfam_881,
Felis catus	ENSFCAG00000009764	1 retrocopy	retro_fcat_1177 ,
Gorilla gorilla	ENSGGOG00000008889	2 retrocopies	retro_ggor_1011, retro_ggor_701,
Macropus eugenii	ENSMEUG00000013735	1 retrocopy	retro_meug_1896,
Myotis lucifugus	ENSMLUG00000005239	2 retrocopies	retro_mluc_1604, retro_mluc_865,
Macaca mulatta	ENSMMUG00000022686	2 retrocopies	retro_mmul_1319, retro_mmul_1869,
Mus musculus	ENSMUSG00000023944	3 retrocopies	retro_mmus_1916, retro_mmus_3528, retro_mmus_856,
Otolemur garnettii	ENSOGAG00000011961	1 retrocopy	retro_ogar_2574,
Pongo abelii	ENSPPYG00000016655	2 retrocopies	retro_pabe_2425, retro_pabe_415,
Rattus norvegicus	ENSRNOG00000019834	6 retrocopies	retro_rnor_1561, retro_rnor_1562, retro_rnor_1787, retro_rnor_597, retro_rnor_598, retro_rnor_87,
Tupaia belangeri	ENSTBEG00000014873	1 retrocopy	retro_tbel_1428,