RetrogeneDB ID: | retro_fcat_1622 | ||
Retrocopy location | Organism: | Cat (Felis catus) | |
| Coordinates: | D4:39790014..39790686(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | C6orf136 | ||
| Ensembl ID: | ENSFCAG00000007692 | ||
| Aliases: | None | ||
| Description: | chromosome 6 open reading frame 136 [Source:HGNC Symbol;Acc:21301] |
Retrocopy-Parental alignment summary:
>retro_fcat_1622
CTACCATTCCCGCCACCCTTGGCCCCAGTCCACAACAACCATTTCTCCATCTTCTCTTCCCTGCCCCCACCCCCTCCTAT
CTTGTTGCTTCCTTGGAGATCCCCCACTCCCTCTCCTTCAGATCCAGGCCCTCAGCTCACCATGGGTGGTTCTCCCTCCA
GGGAAGGGGGAAGAGAGACCCAGACGTGAGATGCATAGCGACTACCTGGATGGGCTTAGGAGCTTATTTGAGGGAACTCC
CTGCCCCTTTCCTGGGGCTTTAATACTTTTCCAAGCCCCTCGGATCTCTTGCCCTTCCCCTACCACACCATCAGGAGATA
TGAATATCAAGGACCACCTGGCTATCATGTATGAGAGACTGAGACAAGAGCTCCCCAATCTCTTCCTTCACTTCCATGAC
TATACTCTGTATTCATCGGGTGTGGAATTCATCAATGAGATCCTGAACATATGTACCAAGGGCTGGACATGGTACCTTCT
GTCACTGACCATCTGCCACTTCCTGGCCTGGAACTATTTTGCACAGCTTCAGTTGGAGGTTCTACAGCTGACCTGCAACC
CAGAGAATTAGACCCTGCAAGCCTGCTGGTGGCTTGTGGGGCTGCCCATCCACATAGTCTTTCTGCATTTCTATAAGTGT
GACAAGGAAGAGCTTAACAGACCTATGTTGCC
ORF - retro_fcat_1622 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 76.19 % |
| Parental protein coverage: | 72.29 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | LPFPPL-WPHSTTTTSPS-SILWSPPLPPPPIWLLPRA-PPLPLPQIQALSSPWVVLPPGKGEEGPGPEM |
| LPFPP..WP.S..TT..S.SI..S.P.PPPPI.LLP...PPLPL.QIQALSSPWVVLPPGKGEE.P..EM | |
| Retrocopy | LPFPPP>WPQS--TTTIS<SIFSSLP-PPPPILLLPWR>PPLPLLQIQALSSPWVVLPPGKGEERPRREM |
| Parental | HSGCLDGLRSLFEGPPCPYPGALIPFQAPGTSCPCPATPSGDPSMEEHLAIMYERLRHELPNLFLHSHDY |
| HS..LDGLRSLFEG.PCP.PGALI.FQAP..SCP.P.TPSGD.....HLAIMYERLR.ELPNLFLH.HDY | |
| Retrocopy | HSDYLDGLRSLFEGTPCPFPGALILFQAPRISCPSPTTPSGDMNIKDHLAIMYERLRQELPNLFLHFHDY |
| Parental | TLYSSDVEFINEILNIRTKGLTWYILSLTLCRFLAWNYFAQLRLEVLQLTRHPENWTLQARWRLVGLPIH |
| TLYSS.VEFINEILNI.TKG.TWY.LSLT.C.FLAWNYFAQL.LEVLQLT..PEN.TLQA.W.LVGLPIH | |
| Retrocopy | TLYSSGVEFINEILNICTKGWTWYLLSLTICHFLAWNYFAQLQLEVLQLTCNPEN*TLQACWWLVGLPIH |
| Parental | MLFLRFYKRDKEELY-QTYDA |
| ..FL.FYK.DKEEL..QTY.A | |
| Retrocopy | IVFLHFYKCDKEELN<QTYVA |
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 | 22 .61 RPM |
| SRP017611_kidney | 0 .00 RPM | 33 .29 RPM |
| SRP017611_liver | 0 .00 RPM | 12 .43 RPM |
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_1622 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_1622 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 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Felis catus | ENSFCAG00000007692 | 1 retrocopy |
retro_fcat_1622 ,
|
| Monodelphis domestica | ENSMODG00000015898 | 1 retrocopy |