RetrogeneDB ID: | retro_dord_297 | ||
Retrocopy location | Organism: | Kangaroo rat (Dipodomys ordii) | |
| Coordinates: | scaffold_104746:1..581(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSDORG00000015317 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Tex30 | ||
| Ensembl ID: | ENSDORG00000002595 | ||
| Aliases: | None | ||
| Description: | testis expressed 30 [Source:MGI Symbol;Acc:MGI:1922873] |
Retrocopy-Parental alignment summary:
>retro_dord_297
ATTCTTACACATGAGGCATTGGGAGATATGAATCTTCCCCATTTGATGTCACTAGCATCTCATCTTGCAACTCACGGATT
TTTTTTGCCTGAGATTTACCTGTAAAAGCCTTAATATTGTACATAGAATTAAAACATATAAAGCAGTTTTGAATTACCTA
AAGAGCTCAGGAGAATACAAACTTGCAGGTGTATTCTTGGGAGGCCGTTCAATGGGCTCAGGAGCAGCTGCCTCTGTAAT
GTGTCATATTAAGCCAGAAGATGGTAATGATTTTGTTAGAGGTCTCATTTGTATTTCCTACTCACTACACCATCCCAAGC
AGCAGCAAAAACTCAGAGATGAAGATCTCTTTCGTTTAAAAGATCCCGTACTCTTTGTGTCAGGCTCCGCAGATGAAATG
TGTGAAAAGAATCTGTTGGAGAAAGTGGCACAGAAAATGAAAGCTCCCAACAAAATCCACTGGATTGAGAAGGCGAATCA
TTCCATGGCGGTGAAGGGACGGTCAACAAATGATGTTTTCAAAGGAATAAATACACAGATTTTGTTTTGGATCCAAGAAA
TCACTGGAATGGACAAGAAA
ORF - retro_dord_297 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 92.78 % |
| Parental protein coverage: | 84.65 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | ILTHGASGDMNLPHLMSLSSHLATHGFFC-LRFTCKGLNIVHRIKAYKAVLNYLKTSGEYKLAGVFLGGR |
| ILTH.A.GDMNLPHLMSL.SHLATHG....LRFTCK.LNIVHRIK.YKAVLNYLK.SGEYKLAGVFLGGR | |
| Retrocopy | ILTHEALGDMNLPHLMSLASHLATHGXXX>LRFTCKSLNIVHRIKTYKAVLNYLKSSGEYKLAGVFLGGR |
| Parental | SMGSRAAASVMCHIEPEDGNDFVRGLICISYPLHHPKQQQKLRDEDLFRLKDPVLFVSGSADEMCEKNLL |
| SMGS.AAASVMCHI.PEDGNDFVRGLICISY.LHHPKQQQKLRDEDLFRLKDPVLFVSGSADEMCEKNLL | |
| Retrocopy | SMGSGAAASVMCHIKPEDGNDFVRGLICISYSLHHPKQQQKLRDEDLFRLKDPVLFVSGSADEMCEKNLL |
| Parental | EKVAQKMKAPNKIHWIEKANHSMAVKGRSTNDVFKEINTQILFWIQEITGMDKK |
| EKVAQKMKAPNKIHWIEKANHSMAVKGRSTNDVFK.INTQILFWIQEITGMDKK | |
| Retrocopy | EKVAQKMKAPNKIHWIEKANHSMAVKGRSTNDVFKGINTQILFWIQEITGMDKK |
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_297 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 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dipodomys ordii | ENSDORG00000002595 | 1 retrocopy |
retro_dord_297 ,
|
| Tarsius syrichta | ENSTSYG00000012079 | 1 retrocopy | |
| Vicugna pacos | ENSVPAG00000005321 | 1 retrocopy |