RetrogeneDB ID: | retro_mdom_1119 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 3:155041400..155042449(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | DBR1 | ||
| Ensembl ID: | ENSMODG00000018554 | ||
| Aliases: | None | ||
| Description: | debranching RNA lariats 1 [Source:HGNC Symbol;Acc:15594] |
Retrocopy-Parental alignment summary:
>retro_mdom_1119
AAATCCTTCTTTCAACAATAAGTAGAAAACAACACGTTGGGAAGCCCTGCTGCTTCAGATCTTTTACATCTTCTGCAACG
TACTTACTGGTTCTCTGCACACCTTCATGTGAAGTTTGCAGCTGTCATGAAACATCAGGCCAATGATGGGCAGGCACCAA
AAGAAACCAAAATTTTAGCCTTAGACAAATGTCTGCCCCACAGAGACTTCCTACAGATATTAGAAGTAGACCATGATGTA
AATGCACCAGACTATTTTGACTATGACCTGGAATGGCTCACTATTTTAAAGGCTACTAATAGTCTTGTAAATATGTCATG
AAGCTTATGGAATATGCCTGAAAATAATGACCTCCAAGCAAAGTGGGATTATAGTGCAACAGAAGAATCTAGGAAAGAGG
TATTGGAAGAAATGAACCAAGATCTCAAAGTTCCATATAACTTCAGTCTGACAGCTATATATGATCCCAGCAAGCCCCAG
AAACACATGGAATTAGTTCATAGGATCAGTCCTCAGACCACAGAATTGTGTGCCCAGGTTGGCCTCACTGATATGAATAA
TCAAATTCAACAAGTGATAGAAAAAAGTTCATTGTGTGGAGACTATGAGAAGGATGTGGACAATAATGGATCAGAAGAAC
CAAGAGTATACAACACAGATAATTCAGTCTTATCTTCTTCAATTAACCCAGATGAAATAATGCTTGATGAGGATGATGAG
GGTGAAGATGGTATTACAGTCATACATGGTGACTTTAGTATTCCCTCAGTGGAACCCTCATCTGATCATCACCTTCCTGA
TTTTTCAACAAGCTTTTCTGACATTAGGATCTTACCAGATTCCATGGTAGTATATTCTGATGATACCATGATTTCTACAA
ATGAACTGGAGAAATCTGGTAAAAATCAGGATTTAGAAGAGGGAGGAACTTAAACGAGAAGTCCTTGAAAAGACTAAGTG
ATGAAACTGGAAATGGAAAACACTTATTTAAGAAAATTAAGAGAAGGAATCAAGCTATCTATTCTACAGAGCATGACAAT
AATTTAGAA
ORF - retro_mdom_1119 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 86.93 % |
| Parental protein coverage: | 64.64 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | KSFFRQEVENNTLGSPAASELLHHLQPTYWFSAHLHVKFAAFMKHQANDGQVPKETKFLALDKCLPHRDF |
| KSFF.Q.VENNTLGSPAAS.LLH.LQ.TYWFSAHLHVKFAA.MKHQANDGQ.PKETK.LALDKCLPHRDF | |
| Retrocopy | KSFFQQ*VENNTLGSPAASDLLHLLQRTYWFSAHLHVKFAAVMKHQANDGQAPKETKILALDKCLPHRDF |
| Parental | LQIIEVDHDANAPDYLEYDLEWLTILKATNSLVNVSRSLWNMPENNGLHAKWDYSATEESMKEVLEEMNH |
| LQI.EVDHD.NAPDY..YDLEWLTILKATNSLVN.S.SLWNMPENN.L.AKWDYSATEES.KEVLEEMN. | |
| Retrocopy | LQILEVDHDVNAPDYFDYDLEWLTILKATNSLVNMS*SLWNMPENNDLQAKWDYSATEESRKEVLEEMNQ |
| Parental | DLKVPYNFSVTAICYDPSKPQKHMELVHRISPQTTEFCAQLGLTDINNRIQQVIEESSLRGDYEEDVDSN |
| DLKVPYNFS.TAI.YDPSKPQKHMELVHRISPQTTE.CAQ.GLTD.NN.IQQVIE.SSL.GDYE.DVD.N | |
| Retrocopy | DLKVPYNFSLTAI-YDPSKPQKHMELVHRISPQTTELCAQVGLTDMNNQIQQVIEKSSLCGDYEKDVDNN |
| Parental | GSEEPSEYNTDNSVLSSSINPDEIMLDEDDEGEDSITGIHGDISTPSVEPSPDHHPPDFSTSFSDIRILP |
| GSEEP..YNTDNSVLSSSINPDEIMLDEDDEGED.IT.IHGD.S.PSVEPS.DHH.PDFSTSFSDIRILP | |
| Retrocopy | GSEEPRVYNTDNSVLSSSINPDEIMLDEDDEGEDGITVIHGDFSIPSVEPSSDHHLPDFSTSFSDIRILP |
| Parental | DSMVVSSDGTMNSTNELEKSSENQDSEE-GRNLNEKSLKRLSDETGNGNHLQKKIKRRNQAIYSTEDDNN |
| DSMVV.SD.TM.STNELEKS..NQD.EE.GRNLNEKSLKRLSDETGNG.HL.KKIKRRNQAIYSTE.DNN | |
| Retrocopy | DSMVVYSDDTMISTNELEKSGKNQDLEE<GRNLNEKSLKRLSDETGNGKHLFKKIKRRNQAIYSTEHDNN |
| Parental | LE |
| LE | |
| Retrocopy | LE |
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 | 0 .00 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 0 .00 RPM |
| SRP007412_heart | 0 .00 RPM | 0 .00 RPM |
| SRP007412_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .00 RPM |
| SRP007412_testis | 0 .00 RPM | 0 .00 RPM |
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_1119 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_1119 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 1 parental gene, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Monodelphis domestica | ENSMODG00000018554 | 2 retrocopies |
retro_mdom_1119 , retro_mdom_1628,
|