RetrogeneDB ID:

retro_dord_626

Retrocopy
location
Organism:Kangaroo rat (Dipodomys ordii)
Coordinates:scaffold_42213:879..1217(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Eif1b
Ensembl ID:ENSDORG00000013689
Aliases:None
Description:eukaryotic translation initiation factor 1B [Source:MGI Symbol;Acc:MGI:1916219]


Retrocopy-Parental alignment summary:






>retro_dord_626
ATGTCTGCTATCCAGACCTCCACTCTTTCGACTCCTTTGCTGATGCAAGTAAGGGTGATGACCTGCTTCCTGCTGACATT
GAGGGTTATATCCATATAAGAATTCCAACAGAGAAACGGCAGGAAGACCCCTACTACTGTCCAAGAGATCGCTGATGATT
ACGATAAAAAGAAACTAGTAAAGGCGTTTAAGAAGAAATTCGCCTGCAATGGTATTGTAATTGAGCATCCAGAATATGGA
GAAGTAATTCAGCTACAGGTAACCAGCTCAAGAACATATGACAGTTCCTGGTAGAGATTGGACTGGCTAAGGACGATGAG
CTGAAGGTTCATGGGTTT

ORF - retro_dord_626 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 79.31 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalMSTIQ-NLQSFDPFADATKGDDLLPAGTEDYIHIRI-QQRNGRKTLTTVQGIADDYDKKKLVKAFKKKFA
MS.IQ..L.SFD.FADA.KGDDLLPA..E.YIHIRI.QQRNGRKT.TTVQ.IADDYDKKKLVKAFKKKFA
RetrocopyMSAIQ<DLHSFDSFADASKGDDLLPADIEGYIHIRI>QQRNGRKTPTTVQEIADDYDKKKLVKAFKKKFA
ParentalCNGTVIEHPEYGEVIQLQ-GDQRKNICQFLLEVGIVKEEQLKVHGF
CNG.VIEHPEYGEVIQLQ.G.Q.KNI.QFL.E.G..K...LKVHGF
RetrocopyCNGIVIEHPEYGEVIQLQ<GNQLKNI*QFLVEIGLAKDDELKVHGF

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_626 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 11 parental genes, and 33 retrocopies.

Species Parental gene accession Retrocopies number
Dipodomys ordii ENSDORG00000013689 4 retrocopies
Dipodomys ordii ENSDORG000000138534 retrocopies
Echinops telfairi ENSETEG000000172955 retrocopies
Microcebus murinus ENSMICG000000132235 retrocopies
Macaca mulatta ENSMMUG000000177041 retrocopy
Monodelphis domestica ENSMODG000000110562 retrocopies
Mus musculus ENSMUSG000000069411 retrocopy
Otolemur garnettii ENSOGAG000000252241 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000121681 retrocopy
Tupaia belangeri ENSTBEG000000131856 retrocopies
Tarsius syrichta ENSTSYG000000063383 retrocopies



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