RetrogeneDB ID:

retro_fcat_898

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:B3:61074762..61075229(-)
Located in intron of:ENSFCAG00000015616
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL23A
Ensembl ID:ENSFCAG00000004021
Aliases:None
Description:ribosomal protein L23a [Source:HGNC Symbol;Acc:10317]


Retrocopy-Parental alignment summary:






>retro_fcat_898
ATGGTGCCAAAGGTGATGAAGGAAGCCCTGCCTCTTCCAAAGCTGAACCCAAAGCAAAGGCTTTGAAGGCCAAGACAGCA
GTGCTGAAAGGCGTCCATAGTCACACGCAAAAAAGATCTGCACATCATCTACATTCAGTGGCCCAAGACCTTGCATCTCC
AAAGACAGCTGAAATATCCTTGAAAGAGAGCCCCCAGGAGAAACAAGCTGACCACTATGCCATCATCAAGTTCCCCCTGA
CTACCAAGTCAGCCATGAAGAAAATAGAAAGCAACAACATACTTGTGTTCATTGTGGATGTCAAGGCCAACAAGCACCAG
ATCAGACAGGCTGTGAAGAAGCTCTGTGACATTGATGTGGCCAAGGTCAACACTCTGATAATCAGGCCCGATGGAGAAAA
GAAGGCATATGTTCAACTGGCTCCTGACTATAAAGGTTTGGATGTTGCCAACAAAATTGGGATCATC

ORF - retro_fcat_898 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 80.75 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalMAPKAKKEA-PAPPKAEAKAKALKAKKAVLKGVHSHKKK-KIRTSPTF-RRPKTLRLRRQPKYPRKSAPR
M.PK..KEA.PA..KAE.KAKALKAK.AVLKGVHSH..K.KI.TS.TF...PKTL.L.RQ.KYP.K.APR
RetrocopyMVPKVMKEA<PASSKAEPKAKALKAKTAVLKGVHSHTQK<KICTSSTF<QWPKTLHLQRQLKYP*KRAPR
ParentalRNKL-DHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTL-IRPDGEKK
RNKL.DHYAIIKFPLTT.SAMKKIE.NN.LVFIVDVKANKHQI.QAVKKL.DIDVAKVNTL.IRPDGEKK
RetrocopyRNKL<DHYAIIKFPLTTKSAMKKIESNNILVFIVDVKANKHQIRQAVKKLCDIDVAKVNTLIIRPDGEKK
ParentalAYVRLAPDYDALDVANKIGII
AYV.LAPDY..LDVANKIGII
RetrocopyAYVQLAPDYKGLDVANKIGII

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 .00 RPM 142 .66 RPM
SRP017611_kidney 0 .10 RPM 397 .70 RPM
SRP017611_liver 0 .00 RPM 184 .89 RPM
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_898 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_898 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 20 parental genes, and 463 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000053112 retrocopies
Bos taurus ENSBTAG000000463946 retrocopies
Callithrix jacchus ENSCJAG000000131267 retrocopies
Dasypus novemcinctus ENSDNOG0000001948765 retrocopies
Felis catus ENSFCAG00000004021 35 retrocopies
Homo sapiens ENSG0000019824257 retrocopies
Gorilla gorilla ENSGGOG0000001673626 retrocopies
Loxodonta africana ENSLAFG0000001338716 retrocopies
Myotis lucifugus ENSMLUG000000124484 retrocopies
Monodelphis domestica ENSMODG000000192973 retrocopies
Mustela putorius furoENSMPUG0000001417912 retrocopies
Mus musculus ENSMUSG000000585468 retrocopies
Nomascus leucogenys ENSNLEG0000000287260 retrocopies
Procavia capensis ENSPCAG0000001700230 retrocopies
Pongo abelii ENSPPYG0000000810849 retrocopies
Pteropus vampyrus ENSPVAG0000000292232 retrocopies
Rattus norvegicus ENSRNOG000000233446 retrocopies
Sarcophilus harrisii ENSSHAG0000001454913 retrocopies
Sus scrofa ENSSSCG000000177689 retrocopies
Ictidomys tridecemlineatus ENSSTOG0000001132823 retrocopies



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