RetrogeneDB ID: | retro_rnor_1874 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 3:29284550..29285289(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Wbp1 | ||
| Ensembl ID: | ENSRNOG00000008720 | ||
| Aliases: | None | ||
| Description: | WW domain-binding protein 1 [Source:RefSeq peptide;Acc:NP_001100070] |
Retrocopy-Parental alignment summary:
>retro_rnor_1874
CTTCAGGTGCTGCAACAGCTTCTTCAAGAGCTGTGCCCAGGAGTTAATACCTAGCCTACATCTGTGAGAGTGGTCATTGC
TATGTGGAGACTGGTTGCTGTACCTACTACTGTGAACTCTGGGAGTTCTGGCTGCTTTGGACTGTCCTCATCCTCTTGAG
TTGTTGTGCCTCCCGCCACTGAAGAGCTAAACTTAGGCTGCAGCAGCAGCAGTGGCAGCGTGAAATCAACTTGTTTACCA
TGGAGCATGTTATGGGACTGGCCCTGTTCCAATTGGTTCACTGCTTGACCTTCACCTCTTCTGAGCCTTCAAACCCCCAG
CCTATGAGGATGTGGTTTAGTACCCAGGAACACTGACACCTCCTTAAACTATGGCCCCTGGTTACCCATTACTTCTAAGG
AATGTACCAGCTAGTCTTCCGAATCCAGCTGCCCTGCCCACTTGGAAGGGACAAATGTAGGTTTTTCCTCCCACCAGAGT
GCTCTCCCTCATTAGGTGAGCCCCAGGGCAGGATGGAGCCCAGTCCACATAAGCCCTTCCTGCCACTATTGTTGTCTGAT
TGATGGCTCAGGTATTGAGCTCTGACCTTGTCTTGACTCCAGCGAAGGTGAGCCAGTCAAGGAGGTAAGGGCTAGTGCCA
CCCAACCAGATCTGGAGTACCATTCCCCCTTGTGCACTGCCTCCAGATTTTATGTCCCAGGCCCTTCCCTTGGGCCTGGT
TTCTAGTTATGGGAACATC
ORF - retro_rnor_1874 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 70.31 % |
| Parental protein coverage: | 93.68 % |
| Number of stop codons detected: | 8 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | LQAPQQQLRELCPGVNTQP-YLCESGHCCGETGCCTYYYELWWFWLLWTVLILFSCCCAFRHRRAKLRLQ |
| LQ..QQ.L.ELCPGVNT.P.Y.CESGHC..ETGCCTYY.ELW.FWLLWTVLIL.SCC.A.RH.RAKLRL. | |
| Retrocopy | LQVLQQLLQELCPGVNT*P<YICESGHCYVETGCCTYYCELWEFWLLWTVLILLSCC-ASRH*RAKLRL- |
| Parental | QQQRQREI-NLLAYHGACHGAGPVPTGSLLDLRLLSAFKPPAYEDVVHHPGTPPPPYTMAPGH-PLTTSN |
| QQQ......N.L.YHGAC.G.GPVP.GSLLDL.L..AFKPPAYEDVV..PGT..PP.TMAPG..P.T.S. | |
| Retrocopy | QQQQWQRE<NQLVYHGACYGTGPVPIGSLLDLHLF*AFKPPAYEDVV*YPGTLTPP*TMAPGY<PIT-SK |
| Parental | ECTRCSSESSCSAQSEGTSVEGVSSNQSALPPQEGEPRAGVSPVHTPPSCRYRHLTGDSGIELCPCPDSS |
| ECT..SSESSC.A..EGT.V.G.SS.QSALP.....PRAG.SPVH..PSC.Y..L...SGIEL.PC.DSS | |
| Retrocopy | ECTS*SSESSCPAHLEGTNV-GFSSHQSALP-H*VSPRAGWSPVHISPSCHYCCLIDGSGIEL*PCLDSS |
| Parental | EGELVKELRASATQPDLEDHS-PCALPPEPMSQVPPVGLASSYGDI |
| EGE.VKE.RASATQPDLE.HS.PCALPP..MSQ..P.GL.SSYG.I | |
| Retrocopy | EGEPVKEVRASATQPDLEYHS>PCALPPDFMSQALPLGLVSSYGNI |
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 | 25 .95 RPM |
| SRP017611_kidney | 0 .00 RPM | 42 .99 RPM |
| SRP017611_liver | 0 .00 RPM | 21 .11 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_1874 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_1874 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_1874 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Homo sapiens | ENSG00000239779 | 2 retrocopies | |
| Rattus norvegicus | ENSRNOG00000008720 | 1 retrocopy |
retro_rnor_1874 ,
|