RetrogeneDB ID: | retro_sara_644 | ||
Retrocopy location | Organism: | Shrew (Sorex araneus) | |
| Coordinates: | scaffold_251404:69514..70102(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PIP4K2B | ||
| Ensembl ID: | ENSSARG00000013917 | ||
| Aliases: | None | ||
| Description: | phosphatidylinositol-5-phosphate 4-kinase, type II, beta [Source:HGNC Symbol;Acc:8998] |
Retrocopy-Parental alignment summary:
>retro_sara_644
ATGGTGTTCAGAAATCTCCGGGAGAGGTTTGGGATTGATGATCAGGATTACCAGAACTCGGTGACACTGCAGCGCCCCAA
TCAACAGTGACAGCAAGGGCCGGTGTGGCACGCGCTTCCTCAACACCTAGGACCGGCGCTTTGTCATCAAGACTGCGTCC
AGCGAGGATGTGGCCGAGATGCACAACATCTCAGAGAAAATACCACCAGTTCGTCGTCAGGGGCCACGGCAGCACGTTCT
TGCCAGTTTCCTGGGCATGCATGTACCGCCTGACCGTGGGTGGCGTGGAGACGTACAAAGGTGGTCACCAGGAATGTGTT
CAGCCACCGGCTCAGGGTCCACCGCCAAGTACGACCTCAAGGGGCCCGCGGTGGCCCGAGAAGCCAGCGACAAGGAGAAG
GCCAAGGACGTGCCGCTGACATTCAAAGGCAACGACTTCCTCAAGGAAGGGCAGAAGCTGCATGCGGGAGAGGAGAGTGA
AAGAGAACTTCCTGGAAAAACTGAAACGGGATGTTGAGTGCCTGGCGCAGCTGGAGATCGTCAGGGACTGCAGCCTGCGG
GTGGGCAACCCGCGACGTGGACCGGGCC
ORF - retro_sara_644 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 78.0 % |
| Parental protein coverage: | 52.62 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 6 |
Retrocopy - Parental Gene Alignment:
| Parental | MVFRNLRERFGIDDQDYQNSVTR-SAPINSDSQGRCGTRFLTTYDRRFVIKTVSSEDVAEMHNI-LKKYH |
| MVFRNLRERFGIDDQDYQNSVT..SAPINSDS.GRCGTRFL.T.DRRFVIKT.SSEDVAEMHNI...KYH | |
| Retrocopy | MVFRNLRERFGIDDQDYQNSVTL>SAPINSDSKGRCGTRFLNT*DRRFVIKTASSEDVAEMHNI>QRKYH |
| Parental | QFIVECHGSTLLP-QFLGMYRLTVDGVETY-MVVTRNVFSHRLTVHR-KYDLKGSTVAREASDKEKAKDL |
| QF.V..HGST.LP.....MYRLTV.GVETY..VVTRNVFSHRL.VHR.KYDLKG..VAREASDKEKAKD. | |
| Retrocopy | QFVVRGHGSTFLPVSWACMYRLTVGGVETY>KVVTRNVFSHRLRVHR>KYDLKGPAVAREASDKEKAKDV |
| Parental | P-TFKDNDFLNEWQKLHVGEES-KKNFLEKLKRDVEFLTQLKIM-DYSLLVG-IHDVNRA |
| P.TFK.NDFL.E.QKLH.GEES.K.NFLEKLKRDVE.L.QL.I..D.SL.VG...DV.RA | |
| Retrocopy | PLTFKGNDFLKEGQKLHAGEES>KENFLEKLKRDVECLAQLEIVRDCSLRVG>TRDVDRA |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Sorex araneus was not studied using RNA-Seq expression data.
Sorex araneus was not studied using ChIP-Seq data.
Sorex araneus was not studied using EST data.
Sorex araneus was not studied using FANTOM5 data.
retro_sara_644 was not experimentally validated.
Retrocopy orthology:
Sorex araneus 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 | |
|---|---|---|---|
| Sorex araneus | ENSSARG00000013917 | 1 retrocopy |
retro_sara_644 ,
|
| Ictidomys tridecemlineatus | ENSSTOG00000014263 | 1 retrocopy |