RetrogeneDB ID: | retro_mdom_1651 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 6:50831384..50831924(-) | ||
| Located in intron of: | ENSMODG00000004463 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ITM2B | ||
| Ensembl ID: | ENSMODG00000011189 | ||
| Aliases: | None | ||
| Description: | integral membrane protein 2B [Source:HGNC Symbol;Acc:6174] |
Retrocopy-Parental alignment summary:
>retro_mdom_1651
GGTGAGGAGGCACTCATCATCCCTCCGGACGCCGTCAGTGTAGATTGCAAGGACACAGATGAAGTGATACCAGTTCACCA
GAGAGCCTGGTGTTGGTGCATGTGCTTTGGGGTTGCGTTCATGCTCGCTGGAGTAATCCTTGGAGGGGCATACCTGTACA
AATACTTTGCATTTCATCAGGATGATATCTACTACTGTGGCATAAAATACATCAAAGATGACTTAATCCTAAACGAGCCC
TCTGCAAATGCTCCAGCTGCTCGCTTCCAGACAATTGAAGAAAATATTAAGATCCTCGAGGAAGATAATGTGGAATTCAT
CAGTGTGCCTGTCCCAGAGTTTGCTGATAGTGATCCTGCCAACATTGTTCATGACTTTCACAAGAAACTTACAGCCTATC
TCGACCTTAATTTGGATAAATGCTATGTGATTCCTCTGAATACTTCCATTATGATGCCTCCCAAAAACTTACTGGAGTTG
CTCATCAACATCAAGGCTGGAACCTATTTGCCTCAATCCTATCTGATTCATGAGCATATG
ORF - retro_mdom_1651 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 96.69 % |
| Parental protein coverage: | 68.05 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | GEEALIIPPDAVSVDCKDTDEVIPVRQRRAWCWCMCFGLAFMLAGVILGGAYLYKYFAFQQDDVYYCGIK |
| GEEALIIPPDAVSVDCKDTDEVIPV.QR.AWCWCMCFG.AFMLAGVILGGAYLYKYFAF.QDD.YYCGIK | |
| Retrocopy | GEEALIIPPDAVSVDCKDTDEVIPVHQR-AWCWCMCFGVAFMLAGVILGGAYLYKYFAFHQDDIYYCGIK |
| Parental | YIKDDLILNEPSANAPAARFQTIEENIKILEEDNVEFISVPVPEFADSDPANIVHDFHKKLTAYLDLNLD |
| YIKDDLILNEPSANAPAARFQTIEENIKILEEDNVEFISVPVPEFADSDPANIVHDFHKKLTAYLDLNLD | |
| Retrocopy | YIKDDLILNEPSANAPAARFQTIEENIKILEEDNVEFISVPVPEFADSDPANIVHDFHKKLTAYLDLNLD |
| Parental | KCYVIPLNTSIVMPPKNLLELLINIKAGTYLPQSYLIHEHM |
| KCYVIPLNTSI.MPPKNLLELLINIKAGTYLPQSYLIHEHM | |
| Retrocopy | KCYVIPLNTSIMMPPKNLLELLINIKAGTYLPQSYLIHEHM |
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_1651 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_1651 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 | |
|---|---|---|---|
| Macropus eugenii | ENSMEUG00000005617 | 1 retrocopy | |
| Microcebus murinus | ENSMICG00000001759 | 1 retrocopy | |
| Monodelphis domestica | ENSMODG00000011189 | 1 retrocopy |
retro_mdom_1651 ,
|
| Tarsius syrichta | ENSTSYG00000001560 | 1 retrocopy |