RetrogeneDB ID: retro_dnov_1068

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_142955:1249..1777(-)
• Located in intron of: None

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_1068
AGTGATGATAGGCAGTGTCACCAAAACTTACTCATTACTTCTTAGTGAATTTGACAGACAAGAAGATGATATTTACTTGG
TGACATTATATGTGACAGAATTAAATGACTGAGAAGAAAATGAAAAACTTTTTCCAACAATTTATGACATTGTTGTCAAC
TTCAAAAATGCAGAGATTATAGAGCCTCCTTTCAAGATTGAGGTCCAGAGAAGGAGCTGCATGCTGCGTGAGCTCTAACA
GGAAGACCGATGATTAGCATATATGATGCAAAGACAGAAAACTTCATATAGGACCATATTACAGTATGACGTTTCCACAT
GTGGATTTCCAGTTGTAGCAAGATGATAAGCAAATACTAGAGAACTTCCCCATATCGCCTCTGATTGAGCTCTCCACTTG
TTGAACATATCAAATCTACTTTGATGTTTTTTTAAAAATACCTATCTCCAACTAACATGCTTTTTCCTGGAAATAAAAGT
ATATATATATTTTTAAAAAATTAAGATGGATTATGGGAAAAGACTTCT

Alignment

ORF - retro_dnov_1068 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.74 %
• Parental protein coverage: 57.28 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  SDDRQ-LSQKLTHQ-LLSEFDRQEDDIHLVTLCVTELNDREENEKHFPIIYGIAVNIKTAEI-YRASFQD
          SDDRQ..S.KLTH..LLSEFDRQEDDI.LVTL.VTELND.EENEK.FP.IY.I.VN.K.AEI.YRASFQD
Retrocopy SDDRQ<VSPKLTHY<LLSEFDRQEDDIYLVTLYVTELND*EENEKLFPTIYDIVVNFKNAEI<YRASFQD

Parental  RGPEEELRAARALTGGPMISIYDAKTE-QLRIGPYYWMPFPHVDFWLQQDDKEILENLSTSPLAEPS-HF
          .GPE.EL.AA.ALTG.PMISIYDAKTE..L.IGPYY.M.FPHVDF.L.QDDK.ILEN...SPL.E.S.H.
Retrocopy *GPEKELHAA*ALTGRPMISIYDAKTE<KLHIGPYYSMTFPHVDFQL*QDDKQILENFPISPLIELS<HL

Parental  VD-HIRSTLMFLKKYPSPTDTLFPGNKAL-LYKKNEDGLWEKIS
          ...HI.STLMF..KY.SPT..LFPGNK......KN.DGLWEK.S
Retrocopy LN<HIKSTLMFF*KYLSPTNMLFPGNKSIYIFLKN*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	0.00 RPM	54.65 RPM
SRP012922_cerebellum	0.14 RPM	29.28 RPM
SRP012922_heart	0.00 RPM	41.30 RPM
SRP012922_kidney	0.00 RPM	47.91 RPM
SRP012922_liver	0.00 RPM	47.06 RPM
SRP012922_lung	0.00 RPM	99.42 RPM
SRP012922_quadricep_muscle	0.00 RPM	91.22 RPM
SRP012922_spleen	0.00 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_1068 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,