RetrogeneDB ID: retro_dnov_129

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_1939:232381..233240(-)
• Located in intron of: ENSDNOG00000004444

Retrocopy information

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

Parental gene information

• Parental gene symbol: NTAN1
• Ensembl ID: ENSDNOG00000016017
• Aliases: None
• Description: N-terminal asparagine amidase [Source:HGNC Symbol;Acc:29909]

Sequence

>retro_dnov_129
AGGACCTTGTATAGAGCCCACCTGCCTCTGGAGGAAACAGCCAGACTTCTCAAAGGTCAGTCTATTAAAAAAGTGGGACC
CAAGGGCTTTCTGTATATTCAGCAAAGAGAGTGACCTCCCCAAAGGATGGCTCCATCTCCATTCTGGGTTCTGATGATGC
CACTGCTTGTCACATTGTGGTGCTAAGGCACACAGGAAATGCAGCTACCTGCTTGACACATTGTGATGGAACCATCACCA
GAGCTGAGGTCCCCATGATCAGGAGCTCCATAACATCATTTTCCAACCACTTTCAATATGGAAGACTGAAATATATTTCA
TGGGAGGCTTCAGTGATGATAGGCAGTTGTCACCAAAACTTACTCATTACTTCTTAGTGAATTTGACAGACAAGAAGATG
ATATTTACTTGGTGACATTATATGTGACAGAATTAAATGACTGAGAAGAAAATGAAAAACTTTTTCCAACAATTTATGAC
ATTGTTGTCAACTTCAAAAATGCAGAGATTATAGAGCCTCCTTTCAGATTGAGGTCCAGAGAAGGAGCTGCATGCTGCGT
GAGCTCTAACAGGAAGACCGATGATTAGCATATATGATGCAAAGACAGAAAACTTCATATAGGACCATATTACAGTATGA
CGTTTCCACATGTGGATTTCCAGTTGTAGCAAGATGATAAGCAAATACTAGAGAACTTCCCCATATCGCCTCTGATTGAG
CTCTCCACTTGTTGAACATATCAAATCTACTTTGATGTTTTTTTAAAAATACCTATCTCCAACTAACATGCTTTTTCCTG
GAAATAAAAGTATATATATATTTTTAAAAAATTAAGATGGATTATGGGAAAAGACTTCT

Alignment

ORF - retro_dnov_129 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.57 %
• Parental protein coverage: 93.85 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 8

Retrocopy - Parental Gene Alignment:

Parental  RISFQAXXXXXERARLLRGQSVQQVGP-QGLLYVQQRELAVTSPKDGSISILGSDDATTCHIVVLRHTGN
          R....A.....E.ARLL.GQS...VGP.QGL.........VTSPKDGSISILGSDDAT.CHIVVLRHTGN
Retrocopy RTLYRAHLPLEETARLLKGQSIKKVGP<QGLSVYSAKR--VTSPKDGSISILGSDDATACHIVVLRHTGN

Parental  GATCLTHCDGSDTKAEVPLIMNSIKSFSNHSQCGRL-EVHLVGGFSDDRQLSQKLTHQ-LLSEFDRQEDD
          .ATCLTHCDG..T.AEVP.I..SI.SFSNH.Q.GRL.E....GGFSDDRQLS.KLTH..LLSEFDRQEDD
Retrocopy AATCLTHCDGTITRAEVPMIRSSITSFSNHFQYGRL<EIYFMGGFSDDRQLSPKLTHY<LLSEFDRQEDD

Parental  IHLVTLCVTELNDREENEKHFPIIYGIAVNIKTAEI-YRASFQ-DRGPEEELRAARALTGGPMISIYDAK
          I.LVTL.VTELND.EENEK.FP.IY.I.VN.K.AEI.YRASFQ.D.GPE.EL.AA.ALTG.PMISIYDAK
Retrocopy IYLVTLYVTELND*EENEKLFPTIYDIVVNFKNAEI<YRASFQ<D*GPEKELHAA*ALTGRPMISIYDAK

Parental  TE-QLRIGPYYWMPFPHVDFWLQQDDKEILENLSTSPLAEPS-HFVD-HIRSTLMFLKKYPSPTDTLFPG
          TE..L.IGPYY.M.FPHVDF.L.QDDK.ILEN...SPL.E.S.H....HI.STLMF..KY.SPT..LFPG
Retrocopy TE<KLHIGPYYSMTFPHVDFQL*QDDKQILENFPISPLIELS<HLLN<HIKSTLMFF*KYLSPTNMLFPG

Parental  NKAL-LYKKNEDGLWEKIS
          NK......KN.DGLWEK.S
Retrocopy NKSIYIFLKN*DGLWEKTS

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	0.39 RPM	54.65 RPM
SRP012922_cerebellum	0.27 RPM	29.28 RPM
SRP012922_heart	0.23 RPM	41.30 RPM
SRP012922_kidney	0.00 RPM	47.91 RPM
SRP012922_liver	0.00 RPM	47.06 RPM
SRP012922_lung	0.61 RPM	99.42 RPM
SRP012922_quadricep_muscle	0.00 RPM	91.22 RPM
SRP012922_spleen	0.34 RPM	149.94 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_129 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 10 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000003857	1 retrocopy	retro_acar_62,
Choloepus hoffmanni	ENSCHOG00000011818	3 retrocopies	retro_chof_1148, retro_chof_1591, retro_chof_2046,
Dasypus novemcinctus	ENSDNOG00000016017	5 retrocopies	retro_dnov_1068, retro_dnov_1159, retro_dnov_129 , retro_dnov_874, retro_dnov_97,
Echinops telfairi	ENSETEG00000014054	1 retrocopy	retro_etel_1914,
Microcebus murinus	ENSMICG00000014995	2 retrocopies	retro_mmur_1479, retro_mmur_959,
Myotis lucifugus	ENSMLUG00000003455	1 retrocopy	retro_mluc_1398,
Mustela putorius furo	ENSMPUG00000014327	1 retrocopy	retro_mputfur_762,
Otolemur garnettii	ENSOGAG00000002538	2 retrocopies	retro_ogar_706, retro_ogar_78,
Pteropus vampyrus	ENSPVAG00000002982	1 retrocopy	retro_pvam_626,
Tupaia belangeri	ENSTBEG00000014096	2 retrocopies	retro_tbel_3921, retro_tbel_905,