RetrogeneDB ID: | retro_fcat_1871 | ||
Retrocopy location | Organism: | Cat (Felis catus) | |
| Coordinates: | JH408642.1:13678..15439(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | DNAJC10 | ||
| Ensembl ID: | ENSFCAG00000026076 | ||
| Aliases: | None | ||
| Description: | DnaJ (Hsp40) homolog, subfamily C, member 10 [Source:HGNC Symbol;Acc:24637] |
Retrocopy-Parental alignment summary:
>retro_fcat_1871
AATAATGTTAACGTAGAGAGTGATTTTCAAAAATAAATAGAGCATAAGAAGTAATCAAAGATGAAGATCTGTAGGAAAAT
TATGACAAATACGGAGAAAAGGGACTTGCAGATGATCCAGAAGGTGGGCCTGTATGAACGCTGGGATTTTGATCGTTATG
ATTTTGGTATTTATGATGATGATCTTGAAAGCATGACACTGGATAGAAGAGAATTGGATGCTGCTGTTCATTCTGGAGAA
CGGTAGTTTGTGAACTTTTACTCCCCAGGATGTTCACACTGTCATGAATTAGCTCCCACATGGAGAGACTGTGCTAAAGA
AGTAGATGGATTACTTCGAATTGGTGCTGTTAACTGTGGTGATGATAGAATGCTTTGCCGAATGAAAGGAGTCAATGGAT
CTCCCAGCCTCTTCCTTTTTAGGTCTGGAACGGCCACAGTGAAATATCACAGGCACAGATCAAAGGAAAGTTTGGTGAGT
TTCGCCATGCAGCATGTTAGAAACACAGTGATGGAATTATGGACGGGAAATTTTGTTCACTCCATAGAAACTGCTTTTGC
TGCTGGTATTGGCCAGCTGATTACTTTCTGTTGCAAAGGAGGAGATTGTTTAACTTCATAGACACGACTCAGGCTCAGGG
GCATGTTGGATGGTCTTGTTAATGTAAGATGGATGGTCTGTGCCGCCCAGGACAAACTTTGTGAAAGTCTGGATATTATA
AGTACTACTGCCTATTTTCCTCTGGCGCCACATTAAATACCAGAGAGAAAAGCAGCGTTTTGTTCCTTAACTCATTGGAT
GCTCGAGAAATATATTTGGAAATCATGCACAGTCTTCCAGATTTTGAGCTACTTTTGGCAAATACACTAACGGATCGATT
GGCTCATCATCGGTGGCTCTTATCGTTTAGTTTCAGAAAACATGAAAATCCAAATGATCCTGAGTTGAGGGAACTAAAAA
CTCTACTCAAAAGTGAACATATTCAAGTTGGCAAGGCTGACTGTCCCTCTGCACCAGACATCTGTAGTAATCTCTCTGTA
TTTCAGCCATGTCTAGCAGTATTTAAAGGACAAGGAACCAAAGAATATGAAATTCATCATGGAAAGAAGATTCTATATGA
TATACTAGCCTTTGCCAAAGAAAGTGGTAATTCTCATGTTGCCACACTTGGACCTCAAAATTTTCCTGCCGATGACAGGA
ACCGTGGCTTGTTGATTTGTTTGTGCCATGGTGTCCACCATGTCAAGCTTTATTGCCAGAGTTACCAAAAGCATCAAAGC
ATCCGTGTGGTCAGATTAAGTTTGGTACACTAGATGGTACGGTTCACGAGGGACCCTGTGACACGTATAAGATTCAGGCG
GATCCAACAACAGTGGTATTCAACCAATCCGAGGTTCATGAATAAGAAGGACATCACTCTGCTGAACAACAGATCTTGGA
ATTCATAGAGGATCCTAGGAACCTTCAGTGACCTCCCTGACACCCACCACTTTCAATGAACTAGCTAAACAAAGAAACCA
TGATGAAGTCTGGATGGTTGACTTCTACTCCCATGGTGTCATCCATGTCAAGTCCTAATGCCAGAATGGAAAAGAATGGC
CCGGACACTAACTGGACAGTTACCGTGGGCAGTATAGACTGCCAACAGTATCATTCTTTTTGTGCCCAAGAAAATGTTCA
GAGATACCCTGAGATAAGATTTCCCCCCCAAAACCAAATAAGGTTTTTCAGTATCACAGTTACAATGGCTAGAAGAGAGA
T
ORF - retro_fcat_1871 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 81.77 % |
| Parental protein coverage: | 74.18 % |
| Number of stop codons detected: | 6 |
| Number of frameshifts detected: | 8 |
Retrocopy - Parental Gene Alignment:
| Parental | NNPNAHSDFLK-INRAYEVLKDEDLRKKYDKYGEKGLADNQEGGQ-YESWNYYRYDFGIYDDDPEIITLD |
| NN.N..SDF.K.INRA.EV.KDEDL...YDKYGEKGLAD..EGG..YE.W...RYDFGIYDDD.E..TLD | |
| Retrocopy | NNVNVESDFQK<INRA*EVIKDEDL*ENYDKYGEKGLADDPEGGP>YERWDFDRYDFGIYDDDLESMTLD |
| Parental | RREFDAAVNSGELWFVNFYSPGCSHCHDLAPTWRDFAKEVDGLLRIGAVNCGDDRMLCRMKGVNSYPSLF |
| RRE.DAAV.SGE..FVNFYSPGCSHCH.LAPTWRD.AKEVDGLLRIGAVNCGDDRMLCRMKGVN..PSLF | |
| Retrocopy | RRELDAAVHSGER*FVNFYSPGCSHCHELAPTWRDCAKEVDGLLRIGAVNCGDDRMLCRMKGVNGSPSLF |
| Parental | IFRSGMAAVKYHGDRSKESLVNFAMQHVRSTVTELWTGNFVNSIETAFAAGVGWLITFCSKGGDCLTSQT |
| .FRSG.A.VKYH..RSKESLV.FAMQHVR.TV.ELWTGNFV.SIETAFAAG.G.LITFC.KGGDCLTS.T | |
| Retrocopy | LFRSGTATVKYHRHRSKESLVSFAMQHVRNTVMELWTGNFVHSIETAFAAGIGQLITFCCKGGDCLTS*T |
| Parental | RLRLSGMLDGLVNIGWMDCATQDNLCKSLDITTSTTAYFP-PGATLNNKEKSSVLFLHSLDAKEIYLEIM |
| RLRL.GMLDGLVN..WM.CA.QD.LC.SLDI..STTAYFP..GATLN..EKSSVLFL.SLDA.EIYLEIM | |
| Retrocopy | RLRLRGMLDGLVNVRWMVCAAQDKLCESLDI-ISTTAYFP<SGATLNTREKSSVLFLNSLDAREIYLEIM |
| Parental | HNLPDFELLSANTLEDRLAHHRWLLFFNFGKHENSNDPELKKLKTLLKSEHIQVGKFDCSSAPDICSNLY |
| H.LPDFELL.ANTL.DRLAHHRWLL.F.F.KHEN.NDPEL..LKTLLKSEHIQVGK.DC.SAPDICSNL. | |
| Retrocopy | HSLPDFELLLANTLTDRLAHHRWLLSFSFRKHENPNDPELRELKTLLKSEHIQVGKADCPSAPDICSNLS |
| Parental | VFQPCLAVFKGQGTKEYEIHHGKKILYDILAFAKESVNSHVTTLGPQNFPANDK-EPWLVDFFAPWCPPC |
| VFQPCLAVFKGQGTKEYEIHHGKKILYDILAFAKES.NSHV.TLGPQNFPA.D..EPWLVD.F.PWCPPC | |
| Retrocopy | VFQPCLAVFKGQGTKEYEIHHGKKILYDILAFAKESGNSHVATLGPQNFPADDR<EPWLVDLFVPWCPPC |
| Parental | RALLPELRKASKHLYGQLKFGTLDCTVHEGLCNMYNIQAYPTTVVFNQSNVHEYEGHHSAE-QILEFIED |
| .ALLPEL.KASKH..GQ.KFGTLD.TVHEG.C..Y.IQA.PTTVVFNQS.VHE.EGHHSAE.QILEFIED | |
| Retrocopy | QALLPELPKASKHPCGQIKFGTLDGTVHEGPCDTYKIQADPTTVVFNQSEVHE*EGHHSAEQQILEFIED |
| Parental | LMN-PSVISLTPTTFSELVKQRKHDEVWMVDFYS-PWCHPCQVLMPEWKRMARTLTG-LINVGSIDCQQY |
| ..N.PSV.SLTPTTF.EL.KQR.HDEVWMVDFYS.PWCHPCQVLMPEWKRMARTLTG....VGSIDCQQY | |
| Retrocopy | PRN<PSVTSLTPTTFNELAKQRNHDEVWMVDFYS<PWCHPCQVLMPEWKRMARTLTG<TVTVGSIDCQQY |
| Parental | HSFCAQENVRRYPEIRFFPQ-KSNKAFQYHSYNGWNRD |
| HSFCAQENV.RYPEIRF.PQ.K.NK.FQYHSYNG..RD | |
| Retrocopy | HSFCAQENVQRYPEIRFPPQ<KPNKVFQYHSYNG*KRD |
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 | 69 .21 RPM |
| SRP017611_kidney | 0 .00 RPM | 64 .31 RPM |
| SRP017611_liver | 0 .00 RPM | 25 .88 RPM |
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_1871 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_1871 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 | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000008390 | 1 retrocopy | |
| Felis catus | ENSFCAG00000026076 | 1 retrocopy |
retro_fcat_1871 ,
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