RetrogeneDB ID: | retro_pabe_3571 | ||
Retrocopy location | Organism: | Orangutan (Pongo abelii) | |
| Coordinates: | Un:10223802..10224842(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | WEE1 | ||
| Ensembl ID: | ENSPPYG00000003494 | ||
| Aliases: | None | ||
| Description: | WEE1 homolog (S. pombe) [Source:HGNC Symbol;Acc:12761] |
Retrocopy-Parental alignment summary:
>retro_pabe_3571
ACACAGCAGTTTCAGGAGCTGCAGACAATTGCTCTGGAGGTTTTGGTTCTGTGTGTACTGTGTGAAGAGGCAGGATGGAT
GCATGCACCGCATTAGGTGATCAGAAAAGCCTTAGGCCAATTCTACAGTGAGCAAAGCGCTCTGAGAGGAGCACAGGCTC
TACTGCAGTGCCTGGACGGCTTCCTCATGCAGTTCCATATTTCTCTGCCTGGGCAGAAGATGGTGCTATGCTTACACAGG
ATGAATATTGTCATAGTGTAAGTTTAGCTGATGCTGAAGTGAAAACTGCAGAATCATGAGTTACTTCAAAGAAGCAGAGT
TGAAGGGTCTCCTTTTGCAAGGTAGCAGGCGCTTGACCTATATTCATTCAATGTCTTTGGTTCACAGGGATACAAAATCT
AGTAGTATTTTTACATCTCGAGTCTCAATCCCAGATGCTGCCTCTGAAGAAGAGGAAGATGACTGGGGATCCAACAAAAT
TATGTTAAACACAGGTGATCTTGGACGTGTAAGAAGGATCTCTAGTCCACAGTTTGAAGAGGGTGATAGTCATTTTCCTG
CAAATGAAGTTTTACAGGAGGATTATACCCATCTATACAGAGAGAGATTTTTTCACTTGTCCTCACCGTGGTATGTGCTG
CTGGTGCTGAAGCTCTTCCCGGAAATGAAGACCAGCGCATGAATTCACACAGGCCAGGTGACCTTGATAGCACAAGTGCT
TTCCTGAGAGTTTATGGAGTTGAGAAAGGTTATGATTCCTCCAGATCCAGAGAGAAGACCTTCAGCAATGGTCCTGGTAA
GCATTTGGTACTGCTGTCTGCTTCTAGAAAGAGGACAGAACAGTAACAAATAGAATTAAAGCCTGGAAATTTCAAAAATT
TACTTTTAGAAGAATAACTCAAGGAAGCACAGATGGCAAAGGCTGCAGCTGAAGAGGAGCACTGTGATGGCAGGACAGCC
ACCGTGTCCAACACCCAGAGTAATGGGCCATTCAGCCTAGTGGAATGCAAATGAGCTGCTCCATCAACCTTCCTGCATAC
ORF - retro_pabe_3571 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 61.94 % |
| Parental protein coverage: | 54.33 % |
| Number of stop codons detected: | 6 |
| Number of frameshifts detected: | 9 |
Retrocopy - Parental Gene Alignment:
| Parental | TTEFHELEKIG-SGEFGSVFK-CVKRLDGCIYAIKRSKKPLAGSVDEQ-NALREVYAHAVLGQHSHVVRY |
| T..F.EL..I..SG.FGSV...CVKR.DGC...I..S.KP.A.S........R.....AV.G...H.V.Y | |
| Retrocopy | TQQFQELQTIA<SGGFGSVCT<CVKRQDGCMHRIR*SEKP*ANSTVSK>RSERSTGSTAVPGRLPHAVPY |
| Parental | FSAWAEDDHMLIQNEYCNGGSLADAI-SENYRIMSYFKEAELKDLLLQVGRGLRYIHSMSLVHMDIKPSN |
| FSAWAED..ML.Q.EYC...SLADA..SEN.RIMSYFKEAELK.LLLQ..R.L.YIHSMSLVH.D.K.S. | |
| Retrocopy | FSAWAEDGAMLTQDEYCHSVSLADAE<SENCRIMSYFKEAELKGLLLQGSRRLTYIHSMSLVHRDTKSSS |
| Parental | IFISRTSIPNAASEEGDEDDWASNKVIFKIGDLGHVTRISSPQVEEGDSRFLANEVLQENYTHLPK-ADI |
| IF.SR.SIP.AASEE..EDDW.SNK.....GDLG.V.RISSPQ.EEGDS.F.ANEVLQE.YTHL.....I | |
| Retrocopy | IFTSRVSIPDAASEE-EEDDWGSNKIMLNTGDLGRVRRISSPQFEEGDSHFPANEVLQEDYTHLYR<REI |
| Parental | FALALTVVCAAGAEPLPRNGDQ-WHEIRQGRLP-RIPQVLSQEFTELLKVMIHPDPERRPSAMALV-KHS |
| F.L.LTVVCAAGAE.LP.N.DQ..HE..Q.R.P..I.QVLS.EF.EL.KVMI.PDPERRPSAM.LV.KH. | |
| Retrocopy | FSLVLTVVCAAGAEALPGNEDQ<AHEFTQAR*P<LIAQVLS*EFMELRKVMIPPDPERRPSAMVLV<KHL |
| Parental | VLLSASRKSAEQLRIELNAEKFKNSLLQKELKKAQMAKAAAEERALFTDRMATRSTTQSNRTSRLI-GKK |
| VLLSASRK..EQ..IEL....FKN.LL...LK.AQMAKAAAEE......R.AT.S.TQSN....L..G.. | |
| Retrocopy | VLLSASRKRTEQ*QIELKPGNFKNLLLEE*LKEAQMAKAAAEEEHC-DGRTATVSNTQSNGPFSLV<GMQ |
| Parental | MNRSVSLTIY |
| M..S..L..Y | |
| Retrocopy | MSCSINLPAY |
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 .00 RPM | 1 .77 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 23 .96 RPM |
| SRP007412_heart | 0 .00 RPM | 7 .83 RPM |
| SRP007412_kidney | 0 .00 RPM | 5 .97 RPM |
| SRP007412_liver | 0 .00 RPM | 4 .59 RPM |
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_3571 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_3571 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_pabe_3571 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Pongo abelii | ENSPPYG00000003494 | 1 retrocopy |
retro_pabe_3571 ,
|
| Pongo abelii | ENSPPYG00000018066 | 1 retrocopy |