RetrogeneDB ID: retro_dnov_1377

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_19028:151..922(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AZI2
• Ensembl ID: ENSDNOG00000011053
• Aliases: None
• Description: 5-azacytidine induced 2 [Source:HGNC Symbol;Acc:24002]

Sequence

>retro_dnov_1377
CAAATTAAGGACTCAGAAAAAAGAGAACTCTTTATTTAAAAGAAAAGAATTAGATTTTTGGAAGAAAAGCTTATAGGATC
TTGATTAGATGAAGAAACAAGTTCTGTGAGATGAGAACAAGCAAATAAAGACTATCATGTATATCAAGAGGTCTGCATTG
ATAGAGATCATCTGAAGAGCAAATTGGGTAACATGAATAAAGGCAACTCTGAGTCTTTGAAAGTATTAAATGAACAGCTA
CTATCTAAAGAAGTAGGACTCCTCCAACTAAAATAAAAGTGGAATCTCAGCAGATCATGAGGAATTTAATGTCCTTTCAT
CTAACTGGGAGGTAGAAAAGTTGATCTGTGACTTGAAGAGCCATGGTTTGAAATAAGAGCTGGAACTGATGATCAAAGAA
TGTAATGATGTCAAAATAGAGCTGCAAAAATCCAAACAAATGGATCTGTCTCAGGAAGACAATCTGTAGAGTAGAGATCT
CCATAGACTAAGCATTTCAAGTGATAATATGCAGCAGGCTTACTGGGTGCTAAAGAGAGAAATGTCTAATTTATATCGGG
TGACTCAAGTACAAGCAAACTACTAAGAAAACTGAAAACCCCAACTGCAATCAAGAAAGCCTGTGCCCTAGTAGGATGTG
TAAAAGACCCTGGAAAAGATAACACAAAAGTACACTTGATGAATTTTACTATAACATAGAAGAAGATATACCTCTCTCTC
ATCAAATGCAAAACTCTTTGTCATACCACATCTTCACCTTTACCAGGAGAC

Alignment

ORF - retro_dnov_1377 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.43 %
• Parental protein coverage: 65.39 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  RLKDSEKENSFL-KKRIRFLEEKLIGSRLDEETSSVGREQVNKAYHAYREVCIDRDNLKSKLDKMNKDNS
          ..KDSEK...F..KKRIRFLEEKLIGS.LDEETSSV..EQ.NK.YH.Y.EVCIDRD.LKSKL..MNK.NS
Retrocopy QIKDSEKRELFI*KKRIRFLEEKLIGS*LDEETSSVR*EQANKDYHVYQEVCIDRDHLKSKLGNMNKGNS

Parental  ESLKVLNEQLQSKEVELLQLR-TEVETQQVMRNL-NPPSSDWEVEKLSCDLKIYGLEQELELMRKECNDL
          ESLKVLNEQL.SKEV.LLQL....VE.QQ.MRNL.N..SS.WEVEKL.CDLK..GL..ELELM.KECND.
Retrocopy ESLKVLNEQLLSKEVGLLQLK<IKVESQQIMRNL<NVLSSNWEVEKLICDLKSHGLK*ELELMIKECNDV

Parental  KIELQKSKQMDLSQEDNLKSRDLQRLNISSDNIQQAYWELKREMSNLHLVTQVQA-ELLRKLKIPTAIKK
          KIELQKSKQMDLSQEDNL.SRDL.RL.ISSDN.QQAYW.LKREMSNL..VTQVQA..LLRKLK.PTAIKK
Retrocopy KIELQKSKQMDLSQEDNL*SRDLHRLSISSDNMQQAYWVLKREMSNLYRVTQVQA<KLLRKLKTPTAIKK

Parental  ACAPVGCVEDFGKDNTKLHLANFTATYK-RYTPVSPD-CKALCHTTSSPIPGD
          ACA.VGCV.D.GKDNTK.HL.NFT.T.K.RYT..S...CK.LCHTTSSP.PGD
Retrocopy ACALVGCVKDPGKDNTKVHLMNFTIT*K>RYTSLSSN<CKTLCHTTSSPLPGD

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	44.73 RPM
SRP012922_cerebellum	0.00 RPM	31.89 RPM
SRP012922_heart	0.00 RPM	12.99 RPM
SRP012922_kidney	0.00 RPM	21.36 RPM
SRP012922_liver	0.00 RPM	16.72 RPM
SRP012922_lung	0.00 RPM	28.86 RPM
SRP012922_quadricep_muscle	0.00 RPM	36.35 RPM
SRP012922_spleen	0.00 RPM	39.03 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_1377 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 14 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000010432	2 retrocopies	retro_chof_1794, retro_chof_234,
Dasypus novemcinctus	ENSDNOG00000011053	2 retrocopies	retro_dnov_1377 , retro_dnov_542,
Homo sapiens	ENSG00000163512	2 retrocopies	retro_hsap_1491, retro_hsap_1564,
Gorilla gorilla	ENSGGOG00000022881	2 retrocopies	retro_ggor_1145, retro_ggor_1189,
Loxodonta africana	ENSLAFG00000008538	2 retrocopies	retro_lafr_529, retro_lafr_925,
Myotis lucifugus	ENSMLUG00000000043	3 retrocopies	retro_mluc_1707, retro_mluc_435, retro_mluc_611,
Macaca mulatta	ENSMMUG00000000056	1 retrocopy	retro_mmul_2135,
Monodelphis domestica	ENSMODG00000015075	1 retrocopy	retro_mdom_1786,
Nomascus leucogenys	ENSNLEG00000004069	1 retrocopy	retro_nleu_1714,
Oryctolagus cuniculus	ENSOCUG00000014956	1 retrocopy	retro_ocun_1778,
Otolemur garnettii	ENSOGAG00000005896	1 retrocopy	retro_ogar_3078,
Pongo abelii	ENSPPYG00000014053	2 retrocopies	retro_pabe_1241, retro_pabe_3784,
Pan troglodytes	ENSPTRG00000014707	1 retrocopy	retro_ptro_1052,
Tursiops truncatus	ENSTTRG00000016434	1 retrocopy	retro_ttru_1093,