RetrogeneDB ID:

retro_ogar_3147

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873730.1:709216..709635(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SDHD
Ensembl ID:ENSOGAG00000008568
Aliases:None
Description:succinate dehydrogenase complex, subunit D, integral membrane protein [Source:HGNC Symbol;Acc:10683]


Retrocopy-Parental alignment summary:






>retro_ogar_3147
CTGTTCCTCTGAACCTTGGTGGTCAGACCTGCTTATCTCTCAGCATTTCTCCAGGACTGACCGGCCCTCTGATGGTGTGG
AGTGCACGAAATACACCTGTCACCCAGCCACCATTCTGGTTTCAAGGCTGCATCTCTCCACTGGACTAGTGAGAGGGTTG
TCAGTGTTTCGCTCCTGGGTCTGCTGCCAGCTGCTTATTTGAATCCTTGTTCTGCAATGGGTTAGCTCCTTGCTGCAGCC
CTTACTCTCCACAGTCACTGGGGCCTTGGACAAGTTGTTACTGTGTTCATGGGGACACACAGCAGAAAGCTGCCAAGGCA
GGCCTTCTGACACTTTTGGCTTTAACCTTTCCTGGGCTTTGTTATTTCAACTATCATGATGTGAGTATCTGCAGAGCTGC
GGCCATGCTGTGGAAACTC

ORF - retro_ogar_3147 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 80.99 %
Parental protein coverage: 99.3 %
Number of stop codons detected: 4
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalLFLRTSVVRPAYVSAFLQDRPAPGWCGVQHIHLSPSHHSASKAASLHWTSERVVSVLLLGLLPAAYLNPC
LFL.T.VVRPAY.SAFLQD.PA..WCGV..IHLSPSHHS..KAASLHWTSERVVSV.LLGLLPAAYLNPC
RetrocopyLFL*TLVVRPAYLSAFLQD*PAL*WCGVHEIHLSPSHHSGFKAASLHWTSERVVSVSLLGLLPAAYLNPC
ParentalSAMDYSLAAALTLHSHWGLGQVVTDYVHGDTSQ-KAAKAGLLALSALTFAGLCYFNYHDVGICRAVAMLW
SAM...LAAALTLHSHWGLGQVVT....G..S..KAAKAGLL.L.ALTF.GLCYFNYHDV.ICRA.AMLW
RetrocopySAMG*LLAAALTLHSHWGLGQVVTVFM-GTHSR<KAAKAGLLTLLALTFPGLCYFNYHDVSICRAAAMLW
ParentalKL
KL
RetrocopyKL

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Otolemur garnettii was not studied using RNA-Seq expression data.
Otolemur garnettii was not studied using ChIP-Seq data.
Otolemur garnettii was not studied using EST data.
Otolemur garnettii was not studied using FANTOM5 data.
retro_ogar_3147 was not experimentally validated.

Retrocopy orthology:
Otolemur garnettii 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 8 parental genes, and 26 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000109754 retrocopies
Echinops telfairi ENSETEG000000084241 retrocopy
Homo sapiens ENSG000002043708 retrocopies
Gorilla gorilla ENSGGOG000000264961 retrocopy
Loxodonta africana ENSLAFG000000027631 retrocopy
Macaca mulatta ENSMMUG000000152471 retrocopy
Otolemur garnettii ENSOGAG00000008568 5 retrocopies
Pongo abelii ENSPPYG000000038765 retrocopies



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