RetrogeneDB ID:

retro_fcat_817

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:B3:19442983..19443214(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL27A
Ensembl ID:ENSFCAG00000008411
Aliases:None
Description:ribosomal protein L27a [Source:HGNC Symbol;Acc:10329]


Retrocopy-Parental alignment summary:






>retro_fcat_817
CCATCCAGACTGAGGAAGACCCAGGAACTTCGGGGCCACTTAAGCCACAGCCACGGCCACATCAGCAAGCACCGGAAGCA
CCCAGGAGGCCAGGGTAATGCTGGTGGTATGTATCACCATCGAATCAACTTCAAACAAATACCAGCCAGGTTACTTTGGA
AAAGCTGGTATGAGGCATTACCACGTGAAGAGGAACCAGAGCTCTGCTGAACTGTCAACCTTGATAAACTG

ORF - retro_fcat_817 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 79.75 %
Parental protein coverage: 52.03 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalPSRLRKTRKLRGHVSHGHGRIGKHRKHPGGRGNAGGMHHHRINF-DKYHPGYFGKVGMRHYHLKRNQS-F
PSRLRKT..LRGH.SH.HG.I.KHRKHPGG.GNAGGM.HHRINF..KY.PGYFGK.GMRHYH.KRNQS..
RetrocopyPSRLRKTQELRGHLSHSHGHISKHRKHPGGQGNAGGMYHHRINF>NKYQPGYFGKAGMRHYHVKRNQS<L
ParentalCPTVNLDKL
C.TVNLDKL
RetrocopyC*TVNLDKL

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP017611_brain 0 .23 RPM 81 .03 RPM
SRP017611_kidney 0 .21 RPM 276 .19 RPM
SRP017611_liver 0 .00 RPM 198 .34 RPM
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_817 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_817 was not experimentally validated.

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.

Parental genes homology:
Parental genes homology involve 15 parental genes, and 67 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000000420515 retrocopies
Bos taurus ENSBTAG000000053492 retrocopies
Canis familiaris ENSCAFG000000069362 retrocopies
Callithrix jacchus ENSCJAG000000117751 retrocopy
Equus caballus ENSECAG000000224691 retrocopy
Ficedula albicollis ENSFALG000000009241 retrocopy
Felis catus ENSFCAG00000008411 13 retrocopies
Loxodonta africana ENSLAFG000000004252 retrocopies
Myotis lucifugus ENSMLUG000000166167 retrocopies
Monodelphis domestica ENSMODG000000074801 retrocopy
Mus musculus ENSMUSG000000463641 retrocopy
Oryctolagus cuniculus ENSOCUG000000054421 retrocopy
Rattus norvegicus ENSRNOG0000001421410 retrocopies
Sus scrofa ENSSSCG000000145699 retrocopies
Taeniopygia guttata ENSTGUG000000083551 retrocopy



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