RetrogeneDB ID:

retro_dnov_1280

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_17561:9135..9911(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:FKBP5
Ensembl ID:ENSDNOG00000004678
Aliases:None
Description:FK506 binding protein 5 [Source:HGNC Symbol;Acc:3721]


Retrocopy-Parental alignment summary:






>retro_dnov_1280
TGTAGAGATGTGGTATTCATTGTTGGTGAAGGAGAAGACCGCTATATTCCCATTGGAATCAACAAAGTCTGGAGGAAATG
CAGCAAGAACAATGTATTTCATATCTTGGACCATGATACGGTTTTGGAGAGGCAGGGAAGTCTAAATTTGGCATTGAACA
TAATGCTGAGCCTATATATGAAGTCACACTTAAGATCATTGAAAAGGCCCAAGAATCTTGGGAGATGTATATCAAAGCAA
AATTGGAGCAGGCTGCCGTTGTCAAAAAGAAGAGAATCGTATCCTTCAAGGGAGGCAAGTACATGCAGGCAGTGATTCAG
TATGGGAAGTTAATATTCTGGTTAGAGATGGAATATGGCTTATCAGAAAAAGAATCTAAAGCTTCCAAATCATTCCTGCT
TGTTGCCTTTCTGAACCTGGCCATGTGCCACGTGAAGCTGAGAGAATACTCAGAGCTGCTGAGTGCTGTGATAAGACCCT
TGGACTGGACAGTGCCAATGAGAAGGACCTGTGCAGGAGGGGTGAAGCCCAGCTGTTCACGCACGAGTCTGAGTCAGCCA
AGGTGACTTTGAGAAAGCATTTGAAGTGATTCCCCAGAACAAGGGTGCAAGACTGCAGATCTCCACGTTCCAGAAAAAGG
CTAAGAAGCACAAGCAGGACTGCAGGATATACCCCAACATGTTCAAGAAATTCACAGAGCAGGATGCAAAGGAAGAGGCA
AGAAAACTTTAGGAGGAGTCTCCAGTGAAAAAGGAACAGCAAGTCAAACAATGGAA

ORF - retro_dnov_1280 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 68.42 %
Parental protein coverage: 57.46 %
Number of stop codons detected: 1
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalCRDVVFIVGEGEDHDIPIGIDK-ALERMQREEHCILHLGPRYGFGEAGKPKFGIEPNAALTYEVTLKSFE
CRDVVFIVGEGED..IPIGI.K..LE.MQ.E..CI..LGP.YGFGEAGK.KFGIE.NA...YEVTLK..E
RetrocopyCRDVVFIVGEGEDRYIPIGINK<SLEEMQQEQ-CISYLGP*YGFGEAGKSKFGIEHNAEPIYEVTLKIIE
ParentalKAKESWEMDTKEKLERAAIVKEKGTVYFKGGKYVQAMIQYGKIVSWLELEYGLSEKESKASDSFLLAAYL
KA.ESWEM..K.KLE.AA.VK.K..V.FKGGKY.QA.IQYGK...WLE.EYGLSEKESKAS.SFLL.A.L
RetrocopyKAQESWEMYIKAKLEQAAVVKKKRIVSFKGGKYMQAVIQYGKLIFWLEMEYGLSEKESKASKSFLLVAFL
ParentalNLAMCYLKVREY-IKAVECCDKTLGLDSANEKGLYRRGEARLLMNEFEAAK-GDFEKVLEVNPQNKAARL
NLAMC..K.REY...A.ECCDKTLGLDSANEK.L.RRGEA.L...E.E.AK.GDFEK..EV.PQNK.ARL
RetrocopyNLAMCHVKLREY<LRAAECCDKTLGLDSANEKDLCRRGEAQLFTHESESAK<GDFEKAFEVIPQNKGARL
ParentalQISVCQKKAKEHNERDRKTYANMFKKFAEQDAKQEA-SKTMGKNTLEEVTNEKEAE
QIS..QKKAK.H...D...Y.NMFKKF.EQDAK.EA..KT.G....E..T.....E
RetrocopyQISTFQKKAKKH-KQDCRIYPNMFKKFTEQDAKEEA<KKTLGGVSSEKGTASQTME

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 41 .42 RPM
SRP012922_cerebellum 0 .00 RPM 22 .96 RPM
SRP012922_heart 0 .00 RPM 56 .15 RPM
SRP012922_kidney 0 .00 RPM 60 .78 RPM
SRP012922_liver 0 .00 RPM 41 .02 RPM
SRP012922_lung 0 .00 RPM 120 .04 RPM
SRP012922_quadricep_muscle 0 .00 RPM 116 .14 RPM
SRP012922_spleen 0 .00 RPM 76 .00 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_1280 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 5 parental genes, and 23 retrocopies.

Species Parental gene accession Retrocopies number
Dasypus novemcinctus ENSDNOG00000004678 1 retrocopy
retro_dnov_1280 ,
Dasypus novemcinctus ENSDNOG0000000586816 retrocopies
Dasypus novemcinctus ENSDNOG000000112441 retrocopy
Echinops telfairi ENSETEG000000184321 retrocopy
Homo sapiens ENSG000000960604 retrocopies



Copyright © RetrogeneDB 2014-2017