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 symbol: FKBP5
• Ensembl ID: ENSDNOG00000004678
• Aliases: None
• Description: FK506 binding protein 5 [Source:HGNC Symbol;Acc:3721]

Sequence

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

Alignment

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:

Parental  CRDVVFIVGEGEDHDIPIGIDK-ALERMQREEHCILHLGPRYGFGEAGKPKFGIEPNAALTYEVTLKSFE
          CRDVVFIVGEGED..IPIGI.K..LE.MQ.E..CI..LGP.YGFGEAGK.KFGIE.NA...YEVTLK..E
Retrocopy CRDVVFIVGEGEDRYIPIGINK<SLEEMQQEQ-CISYLGP*YGFGEAGKSKFGIEHNAEPIYEVTLKIIE

Parental  KAKESWEMDTKEKLERAAIVKEKGTVYFKGGKYVQAMIQYGKIVSWLELEYGLSEKESKASDSFLLAAYL
          KA.ESWEM..K.KLE.AA.VK.K..V.FKGGKY.QA.IQYGK...WLE.EYGLSEKESKAS.SFLL.A.L
Retrocopy KAQESWEMYIKAKLEQAAVVKKKRIVSFKGGKYMQAVIQYGKLIFWLEMEYGLSEKESKASKSFLLVAFL

Parental  NLAMCYLKVREY-IKAVECCDKTLGLDSANEKGLYRRGEARLLMNEFEAAK-GDFEKVLEVNPQNKAARL
          NLAMC..K.REY...A.ECCDKTLGLDSANEK.L.RRGEA.L...E.E.AK.GDFEK..EV.PQNK.ARL
Retrocopy NLAMCHVKLREY<LRAAECCDKTLGLDSANEKDLCRRGEAQLFTHESESAK<GDFEKAFEVIPQNKGARL

Parental  QISVCQKKAKEHNERDRKTYANMFKKFAEQDAKQEA-SKTMGKNTLEEVTNEKEAE
          QIS..QKKAK.H...D...Y.NMFKKF.EQDAK.EA..KT.G....E..T.....E
Retrocopy QISTFQKKAKKH-KQDCRIYPNMFKKFTEQDAKEEA<KKTLGGVSSEKGTASQTME

Legend:

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

Expression

RNA-Seq

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

ChIP-Seq

Dasypus novemcinctus was not studied using ChIP-Seq data.

EST

Dasypus novemcinctus was not studied using EST data.

TSS

Dasypus novemcinctus was not studied using FANTOM5 data.

Lab

retro_dnov_1280 was not experimentally validated.

Homology

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.

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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	ENSDNOG00000005868	16 retrocopies	retro_dnov_1289, retro_dnov_1577, retro_dnov_1666, retro_dnov_2236, retro_dnov_228, retro_dnov_2404, retro_dnov_2418, retro_dnov_2544, retro_dnov_2589, retro_dnov_263, retro_dnov_584, retro_dnov_621, retro_dnov_670, retro_dnov_684, retro_dnov_707, retro_dnov_937,
Dasypus novemcinctus	ENSDNOG00000011244	1 retrocopy	retro_dnov_894,
Echinops telfairi	ENSETEG00000018432	1 retrocopy	retro_etel_867,
Homo sapiens	ENSG00000096060	4 retrocopies	retro_hsap_4255, retro_hsap_4260, retro_hsap_4262, retro_hsap_4318,