RetrogeneDB ID: | retro_mdom_915 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 2:418390883..418392047(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | EHD3 | ||
| Ensembl ID: | ENSMODG00000015505 | ||
| Aliases: | None | ||
| Description: | EH-domain containing 3 [Source:HGNC Symbol;Acc:3244] |
Retrocopy-Parental alignment summary:
>retro_mdom_915
AAGGGTTCCTATCTTTTTTTATCAGTGGCTCAGAGATTGAGTAAACTGTACTTGGAAAAGCTGCTGCCATTGGAAGAGAT
GTATCAGTTTGGTAGGTTCCACTCGCCTCCACTCACGGACGCAGACTTCGATAACCGGCCCATGGTGCTTCTGATGGGCC
AGTACAGCACAGGGAAGACAACCTTCATCAGTCACCTCATCGAGCAGACATTCCCGTGCATGCGCATTGGACCCGAGCCC
ACTACTGATGCCTTCATTGTCCTCATGCATGGTGAAGTGGAGAACGTGATGCCAGGAAACGTGGCTGTGGTAGACCGACG
CTTCCCCTTCCGCAATCTCACCAGATTTGGCAATGCCTTTCTCAATCGCTTCAATTTGGTCCAGATACCCAATGAGTTTC
TGGACAGTATCAGCATCATTGACACCCCTGGAATTCTTGCTGGTGAGAAACAACGGCTCAGTAGAGGTTATGACTTCTCA
GCAGTGCTCGAGTGGTTTGCCCAGCGGGTAGATCTTATCATCCTGCTTTTTGATGCTCATAAATTGGACATATCCGATGA
ACTGTCCCAGGCAATCAAATCTATCAAGAACAATGAAGATAAAATGCGAGTAGTGCTAAACAAATCTGACCAGGTGGGAA
CTCAGCAACTGATGCGGGTCTATGGGGCCCTCATGTGGTCCTTGGGCAAGATCATTAATACCCCCGAGGTGATGAGGGTG
TATATAGGTTCCTTCTGGTCAGAGCCCTATGTGAATGATGAAAACAGCAAGCTTTTTGAAGCAGAGGCTTTGGATCTTTA
TAAGGACATTCAGCAGCTGCCCCATTATAGTACTGTTAGGAAAATGAATGACCTGATCAAACGAGCCAGGTTGGCCAGGG
TCCATGGCTACATCATCGCCACCCTCAAGAAAGAGTTGCCCTTATTTGGGAAGGAGAACAAAAAAAGGGAATTGATCACC
AACCTACAAGAGATCTTCCTTAAAGTTCAACGAGATTATCATATTTCTTCTGGAGACTTCCCAAATGTCCAGAAAATGCA
AGAAATACTAGTTTCCCAAGACTTCACCAAGTTCCAGAATCTGAAACCCAAGCTCTTTGATACATTGGAAGACATGCTGT
CAAAAGATATAACTCGTTTGATGTATTTGATGAGAGAAGAAGAG
ORF - retro_mdom_915 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 68.12 % |
| Parental protein coverage: | 72.71 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | KDPEVFQTVSEGLKKLYKTKLLPLEEYYRFHEFHSPALEDADFDNKPMVLLVGQYSTGKTTFIRYLLEQD |
| K....F..V...L.KLY..KLLPLEE.Y.F..FHSP.L.DADFDN.PMVLL.GQYSTGKTTFI..L.EQ. | |
| Retrocopy | KGSYLFLSVAQRLSKLYLEKLLPLEEMYQFGRFHSPPLTDADFDNRPMVLLMGQYSTGKTTFISHLIEQT |
| Parental | FPGMRIGPEPTTDSFIAVMQGDVEGIIPGNALVVDPKKPFRKLNAFGNAFLNRFVCAQLPNPVLESISVI |
| FP.MRIGPEPTTD.FI..M.G.VE...PGN..VVD...PFR.L..FGNAFLNRF...Q.PN..L.SIS.I | |
| Retrocopy | FPCMRIGPEPTTDAFIVLMHGEVENVMPGNVAVVDRRFPFRNLTRFGNAFLNRFNLVQIPNEFLDSISII |
| Parental | DTPGILSGEKQRISRGYDFAAVLEWFAERVDRIILLFDAHKLDISDEFSEVIKALKNHEDKMRVVLNKAD |
| DTPGIL.GEKQR.SRGYDF.AVLEWFA.RVD.IILLFDAHKLDISDE.S..IK..KN.EDKMRVVLNK.D | |
| Retrocopy | DTPGILAGEKQRLSRGYDFSAVLEWFAQRVDLIILLFDAHKLDISDELSQAIKSIKNNEDKMRVVLNKSD |
| Parental | QIETQQLMRVYGALMWSLGKIVNTPEVIRVYIGSFWSHPLLIPDNRKLFEAEEQDLFRDIQSLPRNAALR |
| Q..TQQLMRVYGALMWSLGKI.NTPEV.RVYIGSFWS.P.....N.KLFEAE..DL..DIQ.LP.....R | |
| Retrocopy | QVGTQQLMRVYGALMWSLGKIINTPEVMRVYIGSFWSEPYVNDENSKLFEAEALDLYKDIQQLPHYSTVR |
| Parental | KLNDLIKRARLAKVHAYIISSLKKEMPSVFGKDNKKKELVNNLGEIYGRIEREHQISPGDFPNLKKMQDQ |
| K.NDLIKRARLA.VH.YII..LKKE.P..FGK.NKK.EL..NL.EI.....R...IS.GDFPN..KMQ.. | |
| Retrocopy | KMNDLIKRARLARVHGYIIATLKKELP-LFGKENKKRELITNLQEIFLKVQRDYHISSGDFPNVQKMQEI |
| Parental | LQAQDFSKFQPLKNKLLEVVEDMLAHDIAQLMVLVRQEE |
| L..QDF.KFQ.LK.KL....EDML..DI..LM.L.R.EE | |
| Retrocopy | LVSQDFTKFQNLKPKLFDTLEDMLSKDITRLMYLMREEE |
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 | 0 .00 RPM | 600 .39 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 290 .54 RPM |
| SRP007412_heart | 0 .00 RPM | 425 .82 RPM |
| SRP007412_kidney | 0 .00 RPM | 529 .37 RPM |
| SRP007412_liver | 0 .00 RPM | 448 .61 RPM |
| SRP007412_testis | 0 .00 RPM | 118 .65 RPM |
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_915 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_915 was not experimentally validated.
Retrocopy orthology:
Monodelphis domestica 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 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Equus caballus | ENSECAG00000015195 | 1 retrocopy | |
| Monodelphis domestica | ENSMODG00000015505 | 1 retrocopy |
retro_mdom_915 ,
|
| Sarcophilus harrisii | ENSSHAG00000013011 | 1 retrocopy | |
| Tupaia belangeri | ENSTBEG00000010371 | 1 retrocopy |