RetrogeneDB ID: | retro_dord_302 | ||
Retrocopy location | Organism: | Kangaroo rat (Dipodomys ordii) | |
| Coordinates: | scaffold_10747:18429..18842(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Stmn2 | ||
| Ensembl ID: | ENSDORG00000005974 | ||
| Aliases: | None | ||
| Description: | stathmin-like 2 [Source:MGI Symbol;Acc:MGI:98241] |
Retrocopy-Parental alignment summary:
>retro_dord_302
GATACTGAGGTGAAGGAACTGGAGGAGCAAGCCTCAGGCCAGGCTTTTGAGCTGATTCTCAACCTTCGGTTGAAAGAATC
TGTTCCTTATTTCCCCCTTTCCCCTCCAAAGAAGACGGATCTTTCCCTGGAGGAAATTGAGAAGAAATTGTATGCTGCAG
AAGAAAGACACAGTCCCATGAAGCTGAGGTCTTACAGCAGCTGTCTGAGAAACGAAAGCATGAGAAAGAAGTGCTTCCGA
AAGCAATAGAAGAGAACAACGATTCCAACAAAATGGCGGAGGAGACACTGACCCACAAGATGGAAACTCACAAAGAAAAT
CCAGAGGCACAAACGGCAGCTAAACTGGAGCGTTTGCACGTGGAAGAGGCGCGGAAAAACAAATTGTCCAAAGATCCTGC
TGCTGAGACTGAA
ORF - retro_dord_302 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 54.68 % |
| Parental protein coverage: | 77.09 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | DMEVKQINKRASGQAFELILKPPSPVSEAPRTLASPKKKDLSLEEIQKKLEAAEERR-KSQEAQVLKQLA |
| D.EVK.....ASGQAFELIL......S.....L..PKK.DLSLEEI.KKL.AAEER...S.EA.VL.QL. | |
| Retrocopy | DTEVKELEEQASGQAFELILNLRLKESVPYFPLSPPKKTDLSLEEIEKKLYAAEERH<QSHEAEVLQQLS |
| Parental | EKREHEREVLQKALEENNNFSKMAEEKLILKMEQIKENREANLAAIIERLQEKERHAAEVRRNKELQVE |
| EKR.HE.EVL.KA.EENN...KMAEE.L..KME..KEN.EA..AA..ERL...E..............E | |
| Retrocopy | EKRKHEKEVLPKAIEENNDSNKMAEETLTHKMETHKENPEAQTAAKLERLHVEEARKNKLSKDPAAETE |
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_302 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 | ENSDORG00000005974 | 1 retrocopy |
retro_dord_302 ,
|
| Mustela putorius furo | ENSMPUG00000001863 | 1 retrocopy | |
| Oryzias latipes | ENSORLG00000008251 | 1 retrocopy |