RetrogeneDB ID: retro_dnov_2660

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_95736:131..508(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MOSPD1
• Ensembl ID: ENSDNOG00000013117
• Aliases: None
• Description: motile sperm domain containing 1 [Source:HGNC Symbol;Acc:25235]

Sequence

>retro_dnov_2660
AGTCATAAGCAAGTGTTGGCTCTGTATAATCCCTATGAGTTTGTCTTAATGTTCAAAGTTTTGTGTACTACTGCAAATAA
GTATGTTGTTGTTCCTGCTGCAGGAACAGCAATGCCTCAGTGTGTGTGTATATTGTGATTCGTCATAGAGATGCTCCGTC
CCGTCACTATGGTGATAAATTCTGTCTCCACGTTTATGAGCAAAGCTAGAGGAAGGCTTTAGGAAGGAATGTTGTTGCTA
CTCTTCTTCCATTTGCAAAAGAACATCAAAAGGAAGAAGAGGGAGAACAAATAAAGGAATATTTAACAGAAAGTTTATAT
TCTGAGCAGTCATTTCGACCAGAAAACACACCTGTCTCCTCAGGGCATAATTTTCTG

Alignment

ORF - retro_dnov_2660 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.52 %
• Parental protein coverage: 60.75 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  THKQVLTLYNPYEFVLKFKVLCTTPNKYVVVDAAGAVKPQC-CVDIVIRHRDVRSCHYGVIDKFRLQVSE
          .HKQVL.LYNPYEFVL.FKVLCTT.NKYVVV.AAG...PQC.CV.IVIRHRD..S.HYG..DKF.L.V.E
Retrocopy SHKQVLALYNPYEFVLMFKVLCTTANKYVVVPAAGTAMPQC<CVYIVIRHRDAPSRHYG--DKFCLHVYE

Parental  QSQRKALGRKEVVATLLPSAKEQQKEEEGKRIKEHLTESLFFEQSFQPGKNRTVSSGPSLL
          QS.RKALGR..VVATLLP.AKE.QKEEEG..IKE.LTESL..EQSF.P..N..VSSG...L
Retrocopy QS*RKALGR-NVVATLLPFAKEHQKEEEGEQIKEYLTESLYSEQSFRP-ENTPVSSGHNFL

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	4.28 RPM
SRP012922_cerebellum	0.41 RPM	4.81 RPM
SRP012922_heart	0.00 RPM	11.14 RPM
SRP012922_kidney	0.00 RPM	2.19 RPM
SRP012922_liver	0.15 RPM	7.28 RPM
SRP012922_lung	0.00 RPM	3.51 RPM
SRP012922_quadricep_muscle	0.00 RPM	9.17 RPM
SRP012922_spleen	0.00 RPM	2.40 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_2660 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 11 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000001304	1 retrocopy	retro_amel_683,
Choloepus hoffmanni	ENSCHOG00000007386	5 retrocopies	retro_chof_1202, retro_chof_1623, retro_chof_201, retro_chof_2295, retro_chof_675,
Dasypus novemcinctus	ENSDNOG00000013117	4 retrocopies	retro_dnov_1825, retro_dnov_2650, retro_dnov_2660 , retro_dnov_926,
Macaca mulatta	ENSMMUG00000022505	1 retrocopy	retro_mmul_133,
Monodelphis domestica	ENSMODG00000015178	1 retrocopy	retro_mdom_159,
Mus musculus	ENSMUSG00000023074	1 retrocopy	retro_mmus_291,
Otolemur garnettii	ENSOGAG00000005739	2 retrocopies	retro_ogar_2508, retro_ogar_528,
Sarcophilus harrisii	ENSSHAG00000011544	1 retrocopy	retro_shar_21,
Sus scrofa	ENSSSCG00000012686	1 retrocopy	retro_sscr_690,
Ictidomys tridecemlineatus	ENSSTOG00000008152	1 retrocopy	retro_itri_1303,
Tarsius syrichta	ENSTSYG00000006102	1 retrocopy	retro_tsyr_1785,