RetrogeneDB ID:

retro_ocun_836

Retrocopy
location
Organism:Rabbit (Oryctolagus cuniculus)
Coordinates:15:62984648..62985026(-)
Located in intron of:ENSOCUG00000013327
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:DYNLT3
Ensembl ID:ENSOCUG00000009787
Aliases:None
Description:dynein, light chain, Tctex-type 3 [Source:HGNC Symbol;Acc:11694]


Retrocopy-Parental alignment summary:






>retro_ocun_836
GCCCCGACCCCTGGAAGAGTCAGCACCACCATGGAGGAATACCACTGCCATTGTGACGAGGTTGGCTTCAATGCTGATGA
AGCCCACAATATTGTCAAAGAGTGTGTAGATGGAGTGTTAGGAGGTGAGGACTGTAATCAGAACAACATCAATCAATGGA
CTGCAGGCATAGTGGAAGAATTCTTAACATACTTGGTTAAATTGGTAAAAGCTTATAAATACATTGTGACCGGTGCAGTG
ATCCAGAGGAGTGCATATGGCTTTCATACCGCCAGTTCATGGTTTTGGGATAGTACATCTGATGGAACCTGTACTGTAAG
ATGGGAGAATCGAACCATGAACTGCATTGTCAACGTTTTTGCCATTGCAGTTGTCCTG

ORF - retro_ocun_836 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 88.1 %
Parental protein coverage: 78.26 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalAPPPGRVGATMEEYHRHCDEVGFNADEAHNIVKECVDGVLGGEDYNQNNINQWTASIVEQSLTHLVKLGK
AP.PGRV..TMEEYH.HCDEVGFNADEAHNIVKECVDGVLGGED.NQNNINQWTA.IVE..LT.LVKL.K
RetrocopyAPTPGRVSTTMEEYHCHCDEVGFNADEAHNIVKECVDGVLGGEDCNQNNINQWTAGIVEEFLTYLVKLVK
ParentalAYKYIVTCAVVQRSAYGFHTASSCFWDTTSDGTCTVRWENRTMNCIVNVFAIAIVL
AYKYIVT.AV.QRSAYGFHTASS.FWD.TSDGTCTVRWENRTMNCIVNVFAIA.VL
RetrocopyAYKYIVTGAVIQRSAYGFHTASSWFWDSTSDGTCTVRWENRTMNCIVNVFAIAVVL

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






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP017611_brain 0 .06 RPM 20 .75 RPM
SRP017611_kidney 0 .00 RPM 4 .36 RPM
SRP017611_liver 0 .00 RPM 1 .23 RPM
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_836 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_836 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ocun_836 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 22 parental genes, and 38 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000381561 retrocopy
Canis familiaris ENSCAFG000000139551 retrocopy
Callithrix jacchus ENSCJAG000000052271 retrocopy
Cavia porcellus ENSCPOG000000019321 retrocopy
Dasypus novemcinctus ENSDNOG000000148261 retrocopy
Felis catus ENSFCAG000000263551 retrocopy
Homo sapiens ENSG000001651692 retrocopies
Macropus eugenii ENSMEUG000000139244 retrocopies
Microcebus murinus ENSMICG000000014401 retrocopy
Myotis lucifugus ENSMLUG000000150931 retrocopy
Macaca mulatta ENSMMUG000000132211 retrocopy
Monodelphis domestica ENSMODG000000211097 retrocopies
Mus musculus ENSMUSG000000311761 retrocopy
Nomascus leucogenys ENSNLEG000000009852 retrocopies
Oryctolagus cuniculus ENSOCUG00000009787 1 retrocopy
retro_ocun_836 ,
Oryctolagus cuniculus ENSOCUG000000130122 retrocopies
Pongo abelii ENSPPYG000000202412 retrocopies
Pan troglodytes ENSPTRG000000217931 retrocopy
Rattus norvegicus ENSRNOG000000036112 retrocopies
Sarcophilus harrisii ENSSHAG000000080692 retrocopies
Tupaia belangeri ENSTBEG000000143832 retrocopies
Vicugna pacos ENSVPAG000000063671 retrocopy



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