RetrogeneDB ID:

retro_dord_219

Retrocopy
location
Organism:Kangaroo rat (Dipodomys ordii)
Coordinates:GeneScaffold_5894:251885..252191(-)
Located in intron of:ENSDORG00000007798
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Hspe1
Ensembl ID:ENSDORG00000011071
Aliases:None
Description:heat shock protein 1 (chaperonin 10) [Source:MGI Symbol;Acc:MGI:104680]


Retrocopy-Parental alignment summary:






>retro_dord_219
ATGGCCGGACAAGCATTTAGGAAGTTCATGCCTCTGTTTGACCGAGTGCTGGTCGAAAGGAGTGCAGCTGAAACTGTGAC
CAAAGGAGGCATTATGCTTCCAGAAAAGTCTCAAGGAAAAGTATTGCAAGCCACAGTAGTGGCTGTGGGCTCGGGCTCTA
AAGGAAAAGGTGAAGAGATTCAGCCAGTTAGTGTGAAAGTGGGTGATAAAGTTCTTCTCCCAGAATATGGAGGCACCAAA
GTAGTTCTAGATGACAAAGATTATTTCTTATTTAGGGATGGTGACATTCTTGGGAAGTATGTAGAG

ORF - retro_dord_219 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 99.02 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAGQAFRKFMPLFDRVLVERSAAETVTKGGIMLPEKSQGKVLQATVVAVGSGSKGKGGEIQPVSVKVGDK
MAGQAFRKFMPLFDRVLVERSAAETVTKGGIMLPEKSQGKVLQATVVAVGSGSKGKG.EIQPVSVKVGDK
RetrocopyMAGQAFRKFMPLFDRVLVERSAAETVTKGGIMLPEKSQGKVLQATVVAVGSGSKGKGEEIQPVSVKVGDK
ParentalVLLPEYGGTKVVLDDKDYFLFRDGDILGKYVE
VLLPEYGGTKVVLDDKDYFLFRDGDILGKYVE
RetrocopyVLLPEYGGTKVVLDDKDYFLFRDGDILGKYVE

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_219 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 9 parental genes, and 110 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000001376918 retrocopies
Bos taurus ENSBTAG000000125894 retrocopies
Cavia porcellus ENSCPOG000000274743 retrocopies
Dasypus novemcinctus ENSDNOG0000001324627 retrocopies
Dipodomys ordii ENSDORG00000011071 19 retrocopies
Loxodonta africana ENSLAFG000000000571 retrocopy
Otolemur garnettii ENSOGAG0000003443424 retrocopies
Rattus norvegicus ENSRNOG000000148686 retrocopies
Vicugna pacos ENSVPAG000000058058 retrocopies



Copyright © RetrogeneDB 2014-2017