RetrogeneDB ID: | retro_pabe_170 | ||
Retrocopy location | Organism: | Orangutan (Pongo abelii) | |
| Coordinates: | 13:36900432..36901446(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSPPYG00000005290 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CSNK1E | ||
| Ensembl ID: | ENSPPYG00000011818 | ||
| Aliases: | None | ||
| Description: | casein kinase 1, epsilon [Source:HGNC Symbol;Acc:2453] |
Retrocopy-Parental alignment summary:
>retro_pabe_170
ATGGCAAACAACAGCGGCTCCAAGGCCGAACTCGTTGTGGGAGGGAAATACAAACTGGTGCGGAAGATCGGGTCTGGCTC
CTTTGGAGACGTTTATCTGGGCATCACCACCACCAACGGCGAGGAAGTAGCAGTGAAGCTGGAATCTCAGAAGGTCAAGC
ACCCCCAGTTGCTGTATGAGAGCAAACTCTACACGATTCTTCAAGGTGGGGTTGGCATCCCCCACATGCACTGGTATGGT
CAGGAAAAAGACAACAATGTGCTAGTCATGGACCTTCTGGGACCCAGCCTCGAAGACCTCTTTAATTTCTGTTCAAGAAG
GTTCACCATGAAAACTGTACTTATGTTAGCCGACCAGATGATCAGCAGAATTGAATACGTGCATACAAAGAATTTTCTTC
ACCGAGACATTAAACCAGATAACTTCCTGATGGGTACTGGGCGTCACTGTAATAAGTTGTTCCTTATTGATTTTGGTTTG
GCCAAAAAGTACAGAGACAACAGGACCAGGCAACACATACCGTACAGAGAAGATAAACACCTCATTGGCACTGTCCGATA
TGCCAGCATCAATGCACATCTTGGTATTGAGCAGAGCCGCCGAGATGACATGGAATCCTTAGGCTACGTTTTCATGTATT
TTAATAGAACCAGCCTGCCGTGGCAAGGACTAAGGGCTATGACAAAAAAACAAAAATATGAAAAGATTAGTGAGAAGAAG
ACGTCCACCCCTGTTGAAGTTTTATGTAAGGGGTTTCCTGCAGAATTCGCCATGTACTTGAACTACTGTCGTGGGCTGCG
CTTTGAGGAAGTCCCAGATTACATGTATCTGAGGCAGCTATTCCGCATTCTTTTCAGGACCCTGAACCACCAATATGACT
ACACATTTGATTGGACGATGTTAAAGCATAAAGCAGCACAGCAGGCAACCTCTTCCAGTGGGCAGGGTCAGCAGGCCCAA
ACCCAGACAGGCAAGCAAACTGAAAAAAACAAGAATAATGTGAAAGATAACTAA
ORF - retro_pabe_170 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 71.81 % |
| Parental protein coverage: | 71.63 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | ELRVGNKYRLGRKIGSGSFGDIYLGANIASGEEVAIKLECVKTKHPQLHIESKFYKMMQGGVGIPSIKWC |
| EL.VG.KY.L.RKIGSGSFGD.YLG.....GEEVA.KLE..K.KHPQL..ESK.Y...QGGVGIP...W. | |
| Retrocopy | ELVVGGKYKLVRKIGSGSFGDVYLGITTTNGEEVAVKLESQKVKHPQLLYESKLYTILQGGVGIPHMHWY |
| Parental | GAEGDYNVMVMELLGPSLEDLFNFCSRKFSLKTVLLLADQMISRIEYIHSKNFIHRDVKPDNFLMGLGKK |
| G.E.D.NV.VM.LLGPSLEDLFNFCSR.F..KTVL.LADQMISRIEY.H.KNF.HRD.KPDNFLMG.G.. | |
| Retrocopy | GQEKDNNVLVMDLLGPSLEDLFNFCSRRFTMKTVLMLADQMISRIEYVHTKNFLHRDIKPDNFLMGTGRH |
| Parental | GNLVYIIDFGLAKKYRDARTHQHIPYRENKNLTGTARYASINTHLGIEQSRRDDLESLGYVLMYFNLGSL |
| .N....IDFGLAKKYRD.RT.QHIPYRE.K.L.GT.RYASIN.HLGIEQSRRDD.ESLGYV.MYFN..SL | |
| Retrocopy | CNKLFLIDFGLAKKYRDNRTRQHIPYREDKHLIGTVRYASINAHLGIEQSRRDDMESLGYVFMYFNRTSL |
| Parental | PWQGLKAATKRQKYERISEKKMSTPIEVLCKGYPSEFSTYLNFCRSLRFDDKPDYSYLRQLFRNLFHRQG |
| PWQGL.A.TK.QKYE.ISEKK.STP.EVLCKG.P.EF..YLN.CR.LRF...PDY.YLRQLFR.LF.... | |
| Retrocopy | PWQGLRAMTKKQKYEKISEKKTSTPVEVLCKGFPAEFAMYLNYCRGLRFEEVPDYMYLRQLFRILFRTLN |
| Parental | FSYDYVFDWNMLKFGAAR |
| ..YDY.FDW.MLK..AA. | |
| Retrocopy | HQYDYTFDWTMLKHKAAQ |
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 |
|---|---|---|
| SRP007412_brain_prefrontal_cortex | 0 .39 RPM | 60 .76 RPM |
| SRP007412_cerebellum | 1 .58 RPM | 34 .17 RPM |
| SRP007412_heart | 0 .54 RPM | 14 .84 RPM |
| SRP007412_kidney | 0 .27 RPM | 28 .67 RPM |
| SRP007412_liver | 0 .52 RPM | 14 .20 RPM |
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_170 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_170 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_pabe_170 has 5 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_32 |
| Pan troglodytes | retro_ptro_7 |
| Gorilla gorilla | retro_ggor_984 |
| Macaca mulatta | retro_mmul_295 |
| Callithrix jacchus | retro_cjac_2680 |
Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Microcebus murinus | ENSMICG00000011583 | 1 retrocopy | |
| Nomascus leucogenys | ENSNLEG00000015080 | 1 retrocopy | |
| Pongo abelii | ENSPPYG00000011818 | 1 retrocopy |
retro_pabe_170 ,
|
| Pan troglodytes | ENSPTRG00000014365 | 1 retrocopy |