RetrogeneDB ID: | retro_fcat_721 | ||
Retrocopy location | Organism: | Cat (Felis catus) | |
| Coordinates: | B2:96575227..96576324(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | IFT74 | ||
| Ensembl ID: | ENSFCAG00000026070 | ||
| Aliases: | None | ||
| Description: | intraflagellar transport 74 homolog (Chlamydomonas) [Source:HGNC Symbol;Acc:21424] |
Retrocopy-Parental alignment summary:
>retro_fcat_721
AATAAGCTGATAGATAAACTTAGTACCAATGCTGAAATGGAAGAAGTAATGAATGATTACAACATGCTTAAAGCTCAAAA
TGAGCTATCCACACAACATATGGATATCATATTTACTGAAAGACAAGCGAAGGAAAAACAAACTAGAAGAGTAGAAGTAG
TTGAATAGGAAAAGCAAGCAGCAGATGACATTATCAGAAACACATCTCCTGAAAAACAAGTCAGGTACATAGAAATGAAA
ACCACAAATGAGAAACTGTTGCAGGAATTAGATACACTTCAGCAACAGCTAGATTCACTGAACATAAAAAAAAGAGAGCT
TGGAAGCTGAAATAGCACACTCCCAGGTTAAATAGGAGGCTGTACTGCTGCACGAAAAACTTTATGAGTTGGAGTCCCAT
CAAGACCAAATGATTGCTGAAGGCAAAAGCATGGGATCTCCAATGAAAGAAAGAGAGAGATTACTCAAGCAAGTTAAAGA
AGATAATCAGGAAATAGGCAGCAAGGAGCAACAGCTAATAGACATAAAAGAAAAAATAAAGCAATTTAATGAAGAAATTA
GACAACTAGACATGGATTTAGAAGAACACCATGGTGAAATGAGTCAGAAGTATAAGGAACTAAAACAGGGAGAGGAAAAT
ACGGACACTTTTATTGAGACTTTTGAGGAAACTAAGAATCAAGAACTGGAACAGAAGGCACAGATAGAAGCCAACATTGT
TACACTTTTGGAGCACAGTAGTAGAAATATAAATTGTATAAAACAGATATCCTCTATCACCAACCAAGAGCTGAAGATGA
TGTAGGATGATCTCAACTTTAAATCTACTGAAATGCAGAAATCACAAAGTGCAACTAGAAATTTGACCTCAGATAGCCAA
TGTCTACAGTTGGATCTACAGAAAATGGAGCTTCTGCAAAGTAAGATGACTGAGGAACAGTATTCTCTGAAAAGCAAAAT
TAAGCAAATGACAGCTGATTTGAAAACATATAATGATTTTCCAGCTTTAAAATCATCAGGTGAAGAAAAAAAAGAAATTA
CATCACGAGAGAACAGTATTAACAACCCGTAGAAATGCCTTTAAGAAAATAACAGAA
ORF - retro_fcat_721 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 75.88 % |
| Parental protein coverage: | 60.93 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | NPCVCNIQRNLVITEIKNKSKVLRASKVIEIQSEDITLSSSETKEKQIRSVEEEVEQEKQAADGI-KNMS |
| N........N....E..N....L.A......Q..DI.......KEKQ.R.VE..VE.EKQAAD.I..N.S | |
| Retrocopy | NKLIDKLSTNAEMEEVMNDYNMLKAQNELSTQHMDIIFTERQAKEKQTRRVEV-VE*EKQAADDIIRNTS |
| Parental | PEKQVKYTEMKTTNEKLLQELDTLQQQLDSLNMKK-ESLEAEIAHSQVKQEAVLLHEKLYELESHRDQMI |
| PEKQV.Y.EMKTTNEKLLQELDTLQQQLDSLN....ESLEAEIAHSQVK.EAVLLHEKLYELESH.DQMI | |
| Retrocopy | PEKQVRYIEMKTTNEKLLQELDTLQQQLDSLNXXX>ESLEAEIAHSQVK*EAVLLHEKLYELESHQDQMI |
| Parental | AEDKSMGSPMEERERLLKQVKEDNQEIASMERQLTDIKEKIKQFNDEIRQLDMDLEEHQGEMNQKYKEKK |
| AE.KSMGSPM.ERERLLKQVKEDNQEI.S.E.QL.DIKEKIKQFN.EIRQLDMDLEEH.GEM.QKYKE.K | |
| Retrocopy | AEGKSMGSPMKERERLLKQVKEDNQEIGSKEQQLIDIKEKIKQFNEEIRQLDMDLEEHHGEMSQKYKELK |
| Parental | R-EENMDTFIETFEETKNQELERKAQIEANIVTLLEHSSRNINRMKQISSITNQELKMMQDDLNFKSTEM |
| ..EEN.DTFIETFEETKNQELE.KAQIEANIVTLLEHSSRNIN..KQISSITNQELKMM.DDLNFKSTEM | |
| Retrocopy | QGEENTDTFIETFEETKNQELEQKAQIEANIVTLLEHSSRNINCIKQISSITNQELKMM*DDLNFKSTEM |
| Parental | QKSQSTARNLTSDSQRLQLDLQKMELLESKMTEEQHSLKSKIKHMTADLETYNDLPALKSSGE-EKKKKL |
| QKSQS..RNLTSDSQ.LQLDLQKMELL.SKMTEEQ.SLKSKIK.MTADL.TYND.PALKSSGE....K.. | |
| Retrocopy | QKSQSATRNLTSDSQCLQLDLQKMELLQSKMTEEQYSLKSKIKQMTADLKTYNDFPALKSSGE>XXXKLH |
| Parental | HQERTVLTTRRNAFKKITE |
| H......T.RRNAFKKITE | |
| Retrocopy | HERTVLTT-RRNAFKKITE |
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 | 14 .12 RPM |
| SRP017611_kidney | 0 .00 RPM | 19 .58 RPM |
| SRP017611_liver | 0 .20 RPM | 4 .35 RPM |
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_721 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_721 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 | |
|---|---|---|---|
| Equus caballus | ENSECAG00000021030 | 1 retrocopy | |
| Felis catus | ENSFCAG00000026070 | 1 retrocopy |
retro_fcat_721 ,
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