RetrogeneDB ID:

retro_dord_150

Retrocopy
location
Organism:Kangaroo rat (Dipodomys ordii)
Coordinates:GeneScaffold_3929:51051..51371(-)
Located in intron of:ENSDORG00000010409
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSDORG00000003705
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_dord_150
ATAGTCAGCCCCACCGTGTTCTTCCACATGGCCTCTGATGGCAAGCCCTTGGGCTACGTTTCCTAAGCGCTGTTTGCAAA
CAAAAGTTCCAAAGACAGCAGAAAATGTCTATGCTCTGAGTACTGGAGAGAAAGGATTTGTTATAAGGGTTCCTGCTGTC
GCCAGATTATCCCAGGTTTCATGTGCCAGGATGGTGACTTCACATGCCATATGGCACTGGTAGCAAGGCCATCTACAGAG
ATAAATTTGAGCATGAGAACTCCATCCTGAAGCATACAGGTCCTGGCATCTTGTCCATGGCAAACACTGGACCAAACAGT

ORF - retro_dord_150 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 73.64 %
Parental protein coverage: 64.85 %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalMVNPTVFFDIAADGKPLGRVCFELFADK-VPKTAENFRALSTGEKGFG-YKGSCFHRIIPGFMCQGGDFT
.V.PTVFF..A.DGKPLG.V...LFA.K.VPKTAEN..ALSTGEKGF..YKGSC...IIPGFMCQ.GDFT
RetrocopyIVSPTVFFHMASDGKPLGYVS*ALFANK>VPKTAENVYALSTGEKGFV<YKGSCCRQIIPGFMCQDGDFT
ParentalCH-NGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPNT
CH..GTG.K.IY..KFE.EN.ILKHTGPGILSMAN.GPN.
RetrocopyCH<YGTGSKAIYRDKFEHENSILKHTGPGILSMANTGPNS

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_150 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 4 parental genes, and 34 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG0000001159712 retrocopies
Dipodomys ordii ENSDORG00000003705 12 retrocopies
Monodelphis domestica ENSMODG000000160899 retrocopies
Sorex araneus ENSSARG000000072501 retrocopy



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