RetrogeneDB ID:

retro_ocun_35

Retrocopy
location
Organism:Rabbit (Oryctolagus cuniculus)
Coordinates:3:64100521..64100950(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOCUG00000023403
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSOCUG00000021449
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ocun_35
ATGGTGGCCGGTGGCGTTGATCCGCGGGCTGGCGACGTCAAGGAGGATGCTTCACAGCTCATCTTTCCCAAAGAGTTTGA
AACAGCTGAGACACTTCTAAATTCCGAGGTGCATATGCTTCTGGAGCATCGCAAGCAGCAGAATGAGAGTGCAGAGGATG
AACAGGAACTCTCGGAGGTCTTCATGAAGACTTTGACCTACACAGCCCGTTTCAGTCGTTTCAAAAACAGAGAGACCATT
GCCAGTGTCCGCAGCTTGCTGCTCCAGAAGAAGCTTCATAAGTTTGAGTTGGCCTGTTTAGCCAACCTTTGTCCAGAGAC
TGCCGAGGAGTCAAAGGCCCTGATCCCAAGCCTGGAGGGGCGATTTGAAGACGAGGAGCTGCAACAAATTCTTGATGATA
TTCAGACAAAGCGCAGCTTTCAGTATTAA

ORF - retro_ocun_35 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 92.31 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalMAAGGVDPRAGDVEEDASQLIFPKEFETAETLLNSEVHMLLEHRKQQNESAEDEQELSEVFMKTLTYTAR
M.AGGVDPRAGDV.EDASQLIFPKEFETAETLLNSEVHMLLEHRKQQNESAEDEQELSEVFMKTLTYTAR
RetrocopyMVAGGVDPRAGDVKEDASQLIFPKEFETAETLLNSEVHMLLEHRKQQNESAEDEQELSEVFMKTLTYTAR
ParentalFSRFKNRETIASVRSLLLQKKLHKFELACLANLCCPHFVIFSKLLECSLEGRFEDEELQQILDDIQTKRS
FSRFKNRETIASVRSLLLQKKLHKFELACLANLC.P.....SK.L..SLEGRFEDEELQQILDDIQTKRS
RetrocopyFSRFKNRETIASVRSLLLQKKLHKFELACLANLC-PETAEESKALIPSLEGRFEDEELQQILDDIQTKRS
ParentalFQY
FQY
RetrocopyFQY

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






RNA-Seq - click to see more details

(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 8 .61 RPM 5 .52 RPM
SRP017611_kidney 4 .46 RPM 6 .08 RPM
SRP017611_liver 2 .77 RPM 3 .24 RPM

ChIP-Seq - click to see more details

Oryctolagus cuniculus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_ocun_35 retrocopy.

TSS - click to see more details

Oryctolagus cuniculus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ocun_35 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ocun_35 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 17 parental genes, and 26 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000117461 retrocopy
retro_amel_1020,
Canis familiaris ENSCAFG000000043112 retrocopies
retro_cfam_1403, retro_cfam_2188,
Choloepus hoffmanni ENSCHOG000000138503 retrocopies
retro_chof_1003, retro_chof_1568, retro_chof_1920,
Dasypus novemcinctus ENSDNOG000000085271 retrocopy
retro_dnov_734,
Felis catus ENSFCAG000000278161 retrocopy
retro_fcat_1148,
Gorilla gorilla ENSGGOG000000047231 retrocopy
retro_ggor_1658,
Macaca mulatta ENSMMUG000000019891 retrocopy
retro_mmul_1011,
Monodelphis domestica ENSMODG000000186534 retrocopies
retro_mdom_1320, retro_mdom_457, retro_mdom_689, retro_mdom_851,
Mustela putorius furoENSMPUG000000166851 retrocopy
retro_mputfur_611,
Mus musculus ENSMUSG000000242581 retrocopy
retro_mmus_1331,
Oryctolagus cuniculus ENSOCUG00000021449 1 retrocopy
retro_ocun_35 ,
Ochotona princeps ENSOPRG000000053272 retrocopies
retro_opri_233, retro_opri_725,
Pongo abelii ENSPPYG000000127591 retrocopy
retro_pabe_1933,
Pan troglodytes ENSPTRG000000124361 retrocopy
retro_ptro_1571,
Sorex araneus ENSSARG000000090371 retrocopy
retro_sara_420,
Sarcophilus harrisii ENSSHAG000000148171 retrocopy
retro_shar_728,
Ictidomys tridecemlineatus ENSSTOG000000233293 retrocopies
retro_itri_1323, retro_itri_145, retro_itri_600,


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