RetrogeneDB ID: | retro_btau_389 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 11:14092293..14093148(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | STK38 | ||
| Ensembl ID: | ENSBTAG00000011126 | ||
| Aliases: | None | ||
| Description: | serine/threonine-protein kinase 38 [Source:RefSeq peptide;Acc:NP_001075071] |
Retrocopy-Parental alignment summary:
>retro_btau_389
ATGGCAATGACAGGCTCAACACCTTGCTTGTCCATGAGTAGTCACACAAAGGAAAGGGTGACAATGATCAAAGTGACACT
GGAGAATTTTTATAGCAACCTTATTGCTCAACATGAAGAATGAGAAATGAGACAAAAGAAGTTAGAAAAAGTGATGGAAG
AAGAAGGCCTCAAGGCTGAAGAGAAACGACTCCGGAGATCAGCACATGCTCGGAAGGAAACAGAGTTTCTTACTTTGAAG
AGAGCAAGACTTGGACTGGAAGATTTTGAGTCCTTAAAAGTAATAGGCAGAGGAGCCTTTGGTGAGGTGTGGCTTGTTCA
GAAGAAAGATACCGGGCATGTGTATGCAATGAAAATACTTCATAAAGCACATATGCTTGAAAAAGAGCAGGTTGGCCACA
ATCGTGCAGAGCGCGACATTCTAGTGGAGGCAGACAGTTTGTGGGTTGTGAAAATGTTCTATAGTTTTCAGGATAAGCTA
AACCTCTACCTAATCATGGAGTTCCTGCCTGGAGGGGACATGATGACCCTGTTGATAAAAAAAGACAGGCTGAGAGAAGA
AGAGACTCAGTTTTACGTAGCAGAAACCGTGTTAGCCTTAGACTCTATTCACCAACTTGGGTTCATCCACAGAGACGTCA
AACAAGACAACCTTCTCCTGGACCGCAAGGGCCATGTGAAGCTTTCTGACTTTGGCCTTTACACAGGACTGAAAAAAGCA
CATAGGACAGAATTTTATAGGAATCTGAACCACAGCCTCCCCAGTGATTTCACTTTTCAGAGCATGAATTCCAAAAGGAA
AGCAGAAACCTGGAAAAGAAATAGACGTTAGCTAGCCTTCTCCAGGGTAGGCACA
ORF - retro_btau_389 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 91.58 % |
| Parental protein coverage: | 61.29 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MAMTGSTPCSSMSSHTKERVTMTKVTLENFYSNLIAQHEEREMRQKKLEKVMEEEGLKDEEKRLRRSAHA |
| MAMTGSTPC.SMSSHTKERVTM.KVTLENFYSNLIAQHEE.EMRQKKLEKVMEEEGLK.EEKRLRRSAHA | |
| Retrocopy | MAMTGSTPCLSMSSHTKERVTMIKVTLENFYSNLIAQHEE*EMRQKKLEKVMEEEGLKAEEKRLRRSAHA |
| Parental | RKETEFLRLKRTRLGLEDFESLKVIGRGAFGEVRLVQKKDTGHVYAMKILRKADMLEKEQVGHIRAERDI |
| RKETEFL.LKR.RLGLEDFESLKVIGRGAFGEV.LVQKKDTGHVYAMKIL.KA.MLEKEQVGH.RAERDI | |
| Retrocopy | RKETEFLTLKRARLGLEDFESLKVIGRGAFGEVWLVQKKDTGHVYAMKILHKAHMLEKEQVGHNRAERDI |
| Parental | LVEADSLWVVKMFYSFQDKLNLYLIMEFLPGGDMMTLLMKKDTLTEEETQFYIAETVLAIDSIHQLGFIH |
| LVEADSLWVVKMFYSFQDKLNLYLIMEFLPGGDMMTLL.KKD.L.EEETQFY.AETVLA.DSIHQLGFIH | |
| Retrocopy | LVEADSLWVVKMFYSFQDKLNLYLIMEFLPGGDMMTLLIKKDRLREEETQFYVAETVLALDSIHQLGFIH |
| Parental | RDIKPDNLLLDSKGHVKLSDFGLCTGLKKALRTEFYRNLNHSLPCDFTFQNMNSKRKAETWKRNRRQLAF |
| RD.K.DNLLLD.KGHVKLSDFGL.TGLKKA.RTEFYRNLNHSLP.DFTFQ.MNSKRKAETWKRNRR.LAF | |
| Retrocopy | RDVKQDNLLLDRKGHVKLSDFGLYTGLKKAHRTEFYRNLNHSLPSDFTFQSMNSKRKAETWKRNRR*LAF |
| Parental | STVGT |
| S.VGT | |
| Retrocopy | SRVGT |
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 |
|---|---|---|
| ERP005899_liver | 0 .00 RPM | 19 .97 RPM |
| ERP005899_muscle | 0 .16 RPM | 24 .60 RPM |
| SRP017611_brain | 0 .00 RPM | 14 .71 RPM |
| SRP017611_kidney | 0 .00 RPM | 32 .48 RPM |
| SRP017611_liver | 0 .00 RPM | 12 .84 RPM |
| SRP030211_testis | 0 .26 RPM | 44 .16 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_389 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_389 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_389 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 5 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000011126 | 1 retrocopy |
retro_btau_389 ,
|
| Callithrix jacchus | ENSCJAG00000016045 | 2 retrocopies | |
| Tarsius syrichta | ENSTSYG00000012409 | 2 retrocopies |