RetrogeneDB ID: retro_dnov_1751

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_2872:128193..128739(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: FOLR1
• Ensembl ID: ENSDNOG00000000856
• Aliases: None
• Description: folate receptor 1 (adult) [Source:HGNC Symbol;Acc:3791]

Sequence

>retro_dnov_1751
GCCCCACTGATGACAACATGGCTGTTGCTCCTTCCAGTGTCAGTGTTCACAGGACGGGGCAGCCAGCCCAAGACTACACA
GGGCAGGGCTGGACTTCTCAACACCTGCATGGATGCCAAGCACCACAAGGAAAAGCCAAGCCCCGAGAACACGCTGCATG
GCCAGTGTCGTCCCTGGAATAAGAGCTCCTGCTGCTCCCACAACACCAGCCAGGAAGCCCATAAGGATATCTCCTACCTG
TACGGATCTAACTGGGACCACTGTGGAGTGGTGGCACCTGCCTGCAAACAGCACTTCATCCAGGACACCTGCCTCTATGA
GTGCTCTCCCTATTTGGGGCCCTGGATCTAGAAGGTGGACCAAAGGTGGTGCAAAGAGTGAATTGTAAATGTGCCCTTGG
GCAAAGAGGACTGTGGGTCCTGGTGGGAGGACTGCCGCATCACCTATACCTGTAAGATCAACTGGCACAAGGGCTGGAAC
TCGACCTTATGGGACAACCAGTGCCTAGTGAAAGCTGCCTGCCAGCCCTTCCATTTCTACTCCCCA

Alignment

ORF - retro_dnov_1751 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.02 %
• Parental protein coverage: 70.82 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ASLMTTRLLLLLVSVLPVWGAQPRTTRDRTGLLNVCMDAKHHKEKPSPENALHGQCHPWNKNSCCSHNTS
          A.LMTT.LLLL.VSV....G.QP.TT..R.GLLN.CMDAKHHKEKPSPEN.LHGQC.PWNK.SCCSHNTS
Retrocopy APLMTTWLLLLPVSVFTGRGSQPKTTQGRAGLLNTCMDAKHHKEKPSPENTLHGQCRPWNKSSCCSHNTS

Parental  QEAHKDISYLYRFNWDHCGVMAPTCKQHFIQDTCLYECSPNLGPWIQKVNQSWRKERILNVPLCKEDCER
          QEAHKDISYLY..NWDHCGV.AP.CKQHFIQDTCLYECSP.LGPWI.KV.Q.W.KE.I.NVPL.KEDC..
Retrocopy QEAHKDISYLYGSNWDHCGVVAPACKQHFIQDTCLYECSPYLGPWI*KVDQRWCKE*IVNVPLGKEDCGS

Parental  WWEDCRSSYTCKSNWHKGWNWTSGYNQCPVKATCQPFHFYFP
          WWEDCR..YTCK.NWHKGWN.T...NQC.VKA.CQPFHFY.P
Retrocopy WWEDCRITYTCKINWHKGWNSTLWDNQCLVKAACQPFHFYSP

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	1.94 RPM
SRP012922_cerebellum	0.00 RPM	3.44 RPM
SRP012922_heart	0.00 RPM	0.23 RPM
SRP012922_kidney	0.00 RPM	174.96 RPM
SRP012922_liver	0.00 RPM	0.46 RPM
SRP012922_lung	0.00 RPM	0.46 RPM
SRP012922_quadricep_muscle	0.00 RPM	0.35 RPM
SRP012922_spleen	0.00 RPM	1.14 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_1751 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 12 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000005777	1 retrocopy	retro_cfam_1723,
Callithrix jacchus	ENSCJAG00000015224	1 retrocopy	retro_cjac_3330,
Dasypus novemcinctus	ENSDNOG00000000856	1 retrocopy	retro_dnov_1751 ,
Echinops telfairi	ENSETEG00000015365	2 retrocopies	retro_etel_1160, retro_etel_128,
Myotis lucifugus	ENSMLUG00000014126	2 retrocopies	retro_mluc_1199, retro_mluc_567,
Monodelphis domestica	ENSMODG00000008017	1 retrocopy	retro_mdom_990,
Monodelphis domestica	ENSMODG00000008032	1 retrocopy	retro_mdom_588,
Monodelphis domestica	ENSMODG00000008042	1 retrocopy	retro_mdom_648,
Mus musculus	ENSMUSG00000001827	1 retrocopy	retro_mmus_1438,
Oryctolagus cuniculus	ENSOCUG00000000165	1 retrocopy	retro_ocun_472,
Otolemur garnettii	ENSOGAG00000000641	5 retrocopies	retro_ogar_2539, retro_ogar_2666, retro_ogar_2758, retro_ogar_2908, retro_ogar_532,
Tarsius syrichta	ENSTSYG00000003503	3 retrocopies	retro_tsyr_1057, retro_tsyr_111, retro_tsyr_1651,