RetrogeneDB ID:

retro_dnov_2377

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_68937:6294..6585(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:TMEM230
Ensembl ID:ENSDNOG00000005724
Aliases:None
Description:transmembrane protein 230 [Source:HGNC Symbol;Acc:15876]


Retrocopy-Parental alignment summary:






>retro_dnov_2377
TGTCAGCTTGTTATGACACCATCTGGTACCAATCTGGCTACGGGAATCTCCAGTAATAAATTGAAATACTCCAGTCTCGA
CAGCACAGATGATGTCTACCTTGACCTTCAGTTTAAGAAAAGCCCTCCCAAAAATTCTTATAAAGCCATTGCACTTGCCA
CCATGCTATTTTTGATTGGCACCTTTCTCTCTCTCCCTCTTGCTGGCAGCCTACAAGAGCAAAGGAGAGTGGGGGCAGAA
TGGACCATTCCTATCCTGATCATTGGCATTCTGGTGTTCCTACCAGGTTTT

ORF - retro_dnov_2377 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 69.31 %
Parental protein coverage: 71.01 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalCQLVMMPSRTNLATGIPSSKVKYSRLSSTDDGYIDLQFKKSPPKIPYKAIALATVLFLIGAFLIIIGSLL
CQLVM.PS.TNLATGI.S.K.KYS.L.STDD.Y.DLQFKKSPPK..YKAIALAT.LFLIG.FL....SL.
RetrocopyCQLVMTPSGTNLATGISSNKLKYSSLDSTDDVYLDLQFKKSPPKNSYKAIALATMLFLIGTFL----SLP
ParentalLAGYIS---KGGADRAVPVLIIGILVFLPGF
LAG........GA....P.LIIGILVFLPGF
RetrocopyLAGSLQEQRRVGAEWTIPILIIGILVFLPGF

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
SRP012922_ascending_colon 0 .00 RPM 20 .03 RPM
SRP012922_cerebellum 0 .00 RPM 12 .23 RPM
SRP012922_heart 0 .00 RPM 3 .94 RPM
SRP012922_kidney 0 .00 RPM 19 .44 RPM
SRP012922_liver 0 .00 RPM 9 .91 RPM
SRP012922_lung 0 .00 RPM 22 .60 RPM
SRP012922_quadricep_muscle 0 .00 RPM 5 .19 RPM
SRP012922_spleen 0 .00 RPM 22 .78 RPM
Dasypus novemcinctus was not studied using ChIP-Seq data.
Dasypus novemcinctus was not studied using EST data.
Dasypus novemcinctus was not studied using FANTOM5 data.
retro_dnov_2377 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 8 parental genes, and 14 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000090831 retrocopy
Bos taurus ENSBTAG000000060632 retrocopies
Canis familiaris ENSCAFG000000060391 retrocopy
Dasypus novemcinctus ENSDNOG00000005724 5 retrocopies
Myotis lucifugus ENSMLUG000000230892 retrocopies
Ochotona princeps ENSOPRG000000086111 retrocopy
Pteropus vampyrus ENSPVAG000000028631 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000193781 retrocopy



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