RetrogeneDB ID:

retro_dnov_1669

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_261096:717..1019(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CNIH4
Ensembl ID:ENSDNOG00000007093
Aliases:None
Description:cornichon homolog 4 (Drosophila) [Source:HGNC Symbol;Acc:25013]


Retrocopy-Parental alignment summary:






>retro_dnov_1669
ATAATTACACTGTGTGATTTAGAATGTGATTACATTAATACTAGATCATGTTGCTCGAAATTAAACAAGTGGGCAATTCC
AGAATTGATTGGCCATACCATTGTGACTGTATTAAAGCTCATTTCATTGCACTGGTTTATTTTTCTTCTCGACTTGTCTG
TTGCCACTTGGAAGGATATATCGGTTCCTTATGGTGCCGAGTGGTAACATGGGAGTATTTGATCCACCCGAAACACAGAA
TCAAGGGCAAGTCAAGTCACATGAAAGAAGCCATCATCAAGCTTGGTTTTCACCTGCTCTGT

ORF - retro_dnov_1669 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.55 %
Parental protein coverage: 94.39 %
Number of stop codons detected: 0
Number of frameshifts detected: 2


Retrocopy - Parental Gene Alignment:

ParentalIITLSDLECDYINARSCCSKLNKWVIPELIGHTFVTVLMLISLHWFIFLLNLPVATWN-IYRFIMVPSGN
IITL.DLECDYIN.RSCCSKLNKW.IPELIGHT.VTVL.LISLHWFIFLL.L.VATW..IYRF.MVPSGN
RetrocopyIITLCDLECDYINTRSCCSKLNKWAIPELIGHTIVTVLKLISLHWFIFLLDLSVATWK>IYRFLMVPSGN
ParentalMGVFDPTEIHN-RGQLKSHMKEAMIKLGFHLLC
MGVFDP.E..N..G...SHMKEA.IKLGFHLLC
RetrocopyMGVFDPPETQN>KGK-SSHMKEAIIKLGFHLLC

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
SRP012922_ascending_colon 0 .00 RPM 7 .78 RPM
SRP012922_cerebellum 0 .00 RPM 2 .06 RPM
SRP012922_heart 0 .00 RPM 2 .78 RPM
SRP012922_kidney 0 .00 RPM 7 .12 RPM
SRP012922_liver 0 .00 RPM 9 .29 RPM
SRP012922_lung 0 .00 RPM 9 .01 RPM
SRP012922_quadricep_muscle 0 .00 RPM 4 .67 RPM
SRP012922_spleen 0 .00 RPM 7 .67 RPM

ChIP-Seq - click to see more details

Dasypus novemcinctus was not studied using ChIP-Seq data.

EST - click to see more details

Dasypus novemcinctus was not studied using EST data.

TSS - click to see more details

Dasypus novemcinctus was not studied using FANTOM5 data.

Lab - click to see more details

retro_dnov_1669 was not experimentally validated.

Retrocopy orthology:
Dasypus novemcinctus 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 15 parental genes, and 17 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000065441 retrocopy
retro_chof_327,
Callithrix jacchus ENSCJAG000000080131 retrocopy
retro_cjac_2474,
Cavia porcellus ENSCPOG000000073101 retrocopy
retro_cpor_777,
Dasypus novemcinctus ENSDNOG00000007093 1 retrocopy
retro_dnov_1669 ,
Homo sapiens ENSG000001437711 retrocopy
retro_hsap_3656,
Gorilla gorilla ENSGGOG000000057081 retrocopy
retro_ggor_2470,
Myotis lucifugus ENSMLUG000000031341 retrocopy
retro_mluc_1314,
Macaca mulatta ENSMMUG000000099361 retrocopy
retro_mmul_1796,
Nomascus leucogenys ENSNLEG000000135491 retrocopy
retro_nleu_514,
Ochotona princeps ENSOPRG000000015891 retrocopy
retro_opri_749,
Pongo abelii ENSPPYG000000001831 retrocopy
retro_pabe_3003,
Pan troglodytes ENSPTRG000000020251 retrocopy
retro_ptro_2481,
Pteropus vampyrus ENSPVAG000000140341 retrocopy
retro_pvam_692,
Ictidomys tridecemlineatus ENSSTOG000000273962 retrocopies
retro_itri_1502, retro_itri_1552,
Vicugna pacos ENSVPAG000000125212 retrocopies
retro_vpac_180, retro_vpac_215,


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