RetrogeneDB ID: retro_dnov_1631

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_249878:16..973(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ALDOB
• Ensembl ID: ENSDNOG00000014816
• Aliases: None
• Description: aldolase B, fructose-bisphosphate [Source:HGNC Symbol;Acc:417]

Sequence

>retro_dnov_1631
CAGTCCATTGGCACCAAGAACACCAAGGAGAATTGGCGCTTCTATCACCAGCTGCTGTTGACCACCACTGACTGTGTGAA
CCCTGCATTGGTTGTGTCATCATCTTCATTGAAACGTTTTACCAGAAGACAGATGATGGGCATCCCTTCCCCCAAGTTAC
CAAATCCAAGGGAGGCATTGTAGGCATCAAGGTAGACAAGAGCGTGGTACCCCTGGCAGGAACAATGGCAAAACCACCAC
CCAAGGGCTGAATGAGCTGTCTGAGCACTGTGCCCAGTACAAGAAAGATGGAGCTGACTTTGCCAAGTGATGCTGTGTGC
TGAAGATCAGGGAGCATAATCCCTCTGCCCTTGCCATCAAGGAGAACACCAATGTGCTGGCCCACCATGCCAGCATCTGC
CAGCAGAATAGCATCGTGCCCATCATGGAGCCAGAGATCCTCCCCAATGGGGACCATGACTTGAAGCGCTGTCTGTATGT
AACCAAGAAGGTCCTGGCTGTGTCCACATGGCCCTGAATAACCATCATGTTCACCTGGAGGGCACCCTGCTGAAGCCCAA
CATGGTGACTGCTGGTCATGCCTGCACCAAGAAGTACACTCCAGACCAAGTGGCTATGGCCACTGTCACAGCTCCCCATC
GCACCATTCCTACCACTGTTTCTAGCACCTCCTTTTTGTCTGGTGTCATGAGTGAATAAGATGCCACTCTCAACCTCAAT
GCTGTCAACCTTTGCCCTCTACCAAGACCCTGGAAATTAAGTTTCTCTTAAGGATGGGCCCTGCAGGCCAGTGAACTTGC
TGCCTGGAATGGCAAGGCTGCAAACAAAAAGGCAACCCAGGAGGCTTTTATGAAGTGGGCTGTGGCTAACTGCCAGGCAG
CCAAAGGGCAGTACGTTCACACGGGCTCTTCTGGTGCAGCCTCCACCCAGTCGCTCTTCACTGCCAGTTACACCTAC

Alignment

ORF - retro_dnov_1631 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.28 %
• Parental protein coverage: 98.16 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  QRIRVENTEENRRQFRELLFTTDDSVNRS-IGGVILFHETLYQKDSQGKLFRNILKEKGIVVGIKLDQGA
          Q.I...NT.EN.R....LL.TT.D.VN...IG.VI.F.ET.YQK...G..F....K.KG..VGIK.D...
Retrocopy QSIGTKNTKENWRFYHQLLLTTTDCVNPA<IGCVIIFIETFYQKTDDGHPFPQVTKSKGGIVGIKVDKSV

Parental  APLAGT-NKETTIQGLDGLSERCAQYKKDGADFGKWRAVLRIADQCPSNLAIQENAYTLARYASICQQNG
          .PLAGT.N..TT.QGL..LSE.CAQYKKDGADF.K...VL.I....PS.LAI.EN...LA..ASICQQN.
Retrocopy VPLAGT<NGKTTTQGLNELSEHCAQYKKDGADFAK*CCVLKIREHNPSALAIKENTNVLAHHASICQQNS

Parental  LVPIVEPEVIPDGDHDMEHCQYVTEKVLAA-MYKALNDHHVYLEGTLLKPNMVTAGHACTKKYTPEQVAM
          .VPI.EPE..P.GDHD...C.YVT.KVLA.....ALN.HHV.LEGTLLKPNMVTAGHACTKKYTP.QVAM
Retrocopy IVPIMEPEILPNGDHDLKRCLYVTKKVLAV<VHMALNNHHVHLEGTLLKPNMVTAGHACTKKYTPDQVAM

Parental  ATVTALHRTVPAAVPGICFLSGGMSEEDATLNLNAINLCPLPRPWKLSFSYGRALQASALAAWNGKAANK
          ATVTA.HRT.P..V....FLSG.MSE.DATLNLNA.NLCPLPRPWKLSFS.G.ALQAS.LAAWNGKAANK
Retrocopy ATVTAPHRTIPTTVSSTSFLSGVMSE*DATLNLNAVNLCPLPRPWKLSFS*GWALQASELAAWNGKAANK

Parental  KATQEAFMKRAVANHQAAEGQYVHTGSSGAASTQSLFTASYTY
          KATQEAFMK.AVAN.QAA.GQYVHTGSSGAASTQSLFTASYTY
Retrocopy KATQEAFMKWAVANCQAAKGQYVHTGSSGAASTQSLFTASYTY

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	20.03 RPM
SRP012922_cerebellum	0.00 RPM	3.16 RPM
SRP012922_heart	0.00 RPM	1.86 RPM
SRP012922_kidney	0.00 RPM	2862.53 RPM
SRP012922_liver	0.00 RPM	2041.13 RPM
SRP012922_lung	0.00 RPM	91.63 RPM
SRP012922_quadricep_muscle	0.00 RPM	2.94 RPM
SRP012922_spleen	0.00 RPM	3.89 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_1631 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 4 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000014816	5 retrocopies	retro_dnov_1625, retro_dnov_1631 , retro_dnov_2028, retro_dnov_2152, retro_dnov_547,
Echinops telfairi	ENSETEG00000017395	2 retrocopies	retro_etel_2089, retro_etel_945,
Monodelphis domestica	ENSMODG00000014418	2 retrocopies	retro_mdom_1752, retro_mdom_393,
Tupaia belangeri	ENSTBEG00000009298	1 retrocopy	retro_tbel_3244,