RetrogeneDB ID: | retro_dord_473 | ||
Retrocopy location | Organism: | Kangaroo rat (Dipodomys ordii) | |
| Coordinates: | scaffold_21157:13345..14803(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Wwp2 | ||
| Ensembl ID: | ENSDORG00000007924 | ||
| Aliases: | None | ||
| Description: | WW domain containing E3 ubiquitin protein ligase 2 [Source:MGI Symbol;Acc:MGI:1914144] |
Retrocopy-Parental alignment summary:
>retro_dord_473
GAGTCTTTGCCATCAGGATGGGAACAGAGAAAGGACCCTCATGGTAGAACCTATTATGTAGATCATAATACTCGAACTAC
CACATGGGAGAGACCACAACCTTTACCCCCAGGTTGGGAAAGAAGAGTTGATGAGCGTGGGAGAGTGTGCTATGTGGATC
ATAACACCAGAACAACAACATAGCAGCGTCCCACCATGGAGTCTGTTCGAAACTTTGAACAGTGGCAATCTCAGCGGAAC
CAATTGCAGGGAGCTATGCAACAGTTCAACCAACGATACCTCTGTTCGGCTTCAATGTTGGCTGCAGAAAATGACCCGTA
TGGACCTTTACCACCAGGTTGGGAAAAAAGAGTGGATTCAACTGACAGGGTTTACTTTGTGAATCACAATACAAAAACAG
CCCAGTGGGAAGATCCTAGGACTCAAGGCTTACAAAATGAAGAACCTCTGCCAGAAGGCTGAGAAATTAGGTATACTCGG
GAAGGTGTTAGGTATTTTGTTGATCATAACACAAGGACAACAACATTCAAAGATCCTCGAAATGGGAAGTCATCTGTAAC
AAAAGGTGGTCCACAGATTGCTTATGAACGCAGCTTTAGGTGGAAACTTGCTCACTTCCGTTATTTGTGCCAGTCTAATG
CACTTCCCAGTCATGTAAAGATCAATGTGTCCTGGCAGACGTTATTTGAAGATTCCTTCCAACAGATTATGGCATTAAAA
CCATATGACTTGAGGAGGCGATTATATGTAATATTTAGAGGAGAAGAAGGACTTGATTATGGAGGTCTGGCAAGAGAATG
GTTTTTCTTGCTTTCACATGAAGTTTTGAACCCAATGTATTGCTTATTTGAATATGCGGGCAAAAACAACTATTGTCTAC
AGATAAATCCAGCATCAACCATAAATCCAGACCATCTTTCGTATTTCTGTTTCATTGGTCGCTTTATTGCAATGGCACTA
TTTCCTGGGAAGTTTATTCATACTGGTTTCTCTTTACCATTCTACAAGCCATATGCTAAGTAAAAAACTTACTATAAAGG
ATCTGGAGCCCATTGATACTGAATTTTATAACTCTCTTATCTGGATAAGGGATAACAACATAGAAGAATGTGGCTTAGAA
ATGTACTTTTCTGTTGACATGGAGATTTTAGGAAAAGTCACTTCACATGACCTAAAGTTGGGAGGTTCCAATATTCTGGT
GACTGAGGAAAACAAAGATGAATATATTGGCTTAATGACAGAATGGCGTTTTTCTCGAGGAGTACAAGAACAGACCAAAG
CTTTCCTTGATGGTTTTAATGAAGTTTTTCCCCTTCAGTGGCTACAATACTTTGATGAAAAAGAATTGGAGGTTATGTTG
TGTGGCATGCACGAGGTTAACTTGACAGATTGGCAGAGAAATACAGTTTATCGACATTATACAGAAACAGCAAGCAAATT
ATTTGGTTTTGGGCAGTT
ORF - retro_dord_473 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 74.8 % |
| Parental protein coverage: | 57.18 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | DALPAGWEQRELPNGRVYYVDHNTKTTTWERP--LPPGWEKRTDPRGRFYYVDHNTRTTT-WRPTAEYVR |
| ..LP.GWEQR..P.GR.YYVDHNT.TTTWERP..LPPGWE.R.D.RGR..YVDHNTRTTT..RPT.E.VR | |
| Retrocopy | ESLPSGWEQRKDPHGRTYYVDHNTRTTTWERPQPLPPGWERRVDERGRVCYVDHNTRTTT*QRPTMESVR |
| Parental | NYEQWQSQRNQLQGAMQHFSQRFLYQSSSASTDHDPLGPLPPGWEKRQDN-GRVYYVNHNTRTTQWEDPR |
| N.EQWQSQRNQLQGAMQ.F.QR.L...S......DP.GPLPPGWEKR.D...RVY.VNHNT.T.QWEDPR | |
| Retrocopy | NFEQWQSQRNQLQGAMQQFNQRYLCSASMLAAENDPYGPLPPGWEKRVDSTDRVYFVNHNTKTAQWEDPR |
| Parental | TQGMIQEPALPPGWEMKYTSEGVRYFVDHNTRTTTFKDPRPGFESGTKQGSPGAYDRSFRWKYHQFRFLC |
| TQG...E..LP.G.E..YT.EGVRYFVDHNTRTTTFKDPR.G..S.TK.G...AY.RSFRWK...FR.LC | |
| Retrocopy | TQGLQNEEPLPEG*EIRYTREGVRYFVDHNTRTTTFKDPRNGKSSVTKGGPQIAYERSFRWKLAHFRYLC |
| Parental | HSNALPSHVKISVSRQTLFEDSFQQIMNMKPYDLRRRLYIIMRGEEGLDYGGIAREWFFLLSHEVLNPMY |
| .SNALPSHVKI.VS.QTLFEDSFQQIM..KPYDLRRRLY.I.RGEEGLDYGG.AREWFFLLSHEVLNPMY | |
| Retrocopy | QSNALPSHVKINVSWQTLFEDSFQQIMALKPYDLRRRLYVIFRGEEGLDYGGLAREWFFLLSHEVLNPMY |
| Parental | CLFEYAGKNNYCLQINPASSINPDHLTYFRFIGRFIAMALYHGKFIDTGFTLPFYK-RMLNKRPTLKDLE |
| CLFEYAGKNNYCLQINPAS.INPDHL.YF.FIGRFIAMAL..GKFI.TGF.LPFYK..ML.K..T.KDLE | |
| Retrocopy | CLFEYAGKNNYCLQINPASTINPDHLSYFCFIGRFIAMALFPGKFIHTGFSLPFYK>HMLSKKLTIKDLE |
| Parental | SIDPEFYNSIVWIKENNLEECGLELFFIQDMEILGKVTTHELKEGGESIRVTEENKEEYIMLLTDWRFTR |
| .ID.EFYNS..WI..NN.EECGLE..F..DMEILGKVT.H.LK.GG..I.VTEENK.EYI.L.T.WRF.R | |
| Retrocopy | PIDTEFYNSLIWIRDNNIEECGLEMYFSVDMEILGKVTSHDLKLGGSNILVTEENKDEYIGLMTEWRFSR |
| Parental | GVEEQTRAFLDGFNEVAPLEWLRYFDEKELELMLCGMQEIDMSDWQKNTIYRHYT-KNSKQIQWFWQV |
| GV.EQT.AFLDGFNEV.PL.WL.YFDEKELE.MLCGM.E....DWQ.NT.YRHYT..NSKQI.WFW.V | |
| Retrocopy | GVQEQTKAFLDGFNEVFPLQWLQYFDEKELEVMLCGMHEVNLTDWQRNTVYRHYT<RNSKQIIWFWAV |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Dipodomys ordii was not studied using RNA-Seq expression data.
Dipodomys ordii was not studied using ChIP-Seq data.
Dipodomys ordii was not studied using EST data.
Dipodomys ordii was not studied using FANTOM5 data.
retro_dord_473 was not experimentally validated.
Retrocopy orthology:
Dipodomys ordii 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 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dipodomys ordii | ENSDORG00000007924 | 1 retrocopy |
retro_dord_473 ,
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