RetrogeneDB ID: retro_dnov_1268

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_17267:3363..3867(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HEBP2
• Ensembl ID: ENSDNOG00000008868
• Aliases: None
• Description: heme binding protein 2 [Source:HGNC Symbol;Acc:15716]

Sequence

>retro_dnov_1268
TACGAGATCCGCAGCTATGGACCCGCCAAGTGGATCAGGACCTTGGTGGAGTCCATGGATTGGGAGTCGGCAGTCCAGGT
CAGTTTCTCCAAACTGAGTGGCTACACTGCAGGCAAGAACGACAGAGAGATGAAAATACAGAAGACAGCCCCGGTGACAA
GCTTCTTGGAGCCGGGCTCAGGCCCTTTCAGCCAGTCCACGGTCACCATTTCCCTGTACCTCCCCTCAGCACAGCAACCC
GATCCACCCAAGCCTGTAGAGCCGGGTGTTTTCATTCAAGACAGAGCTGAAATGACCGTGTTTGTCAGGTCTTTCAATGG
ATTCTCGAATGCCCAAAAGAATCAAGAACGACTCCTAACGTTAGCCAGCATTTTGAGGGAAGAAGGCAAAGTTTTCTATG
AAAAGGTTTACTATACTGCAGGGTTACAATAGTTCTTTCCAATTGCTTGACAGAAATAATAAAGTATAGTTGATTCAGAA
AATGAAGACGCCAAAGAAAATGAG

Alignment

ORF - retro_dnov_1268 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.41 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  YEIRRYGPAKWVSTSLEIVD-DSAVQAGFSKLSGYLAGKNDREMKIQQTAPVTSFVEPGAGPFSQSTVTV
          YEIR.YGPAKW..T..E..D..SAVQ..FSKLSGY.AGKNDREMKIQ.TAPVTSF.EPG.GPFSQSTVT.
Retrocopy YEIRSYGPAKWIRTLVESMDWESAVQVSFSKLSGYTAGKNDREMKIQKTAPVTSFLEPGSGPFSQSTVTI

Parental  SLYLPAAQQAEPPQPAEPGVFIEDRAEMTVFARSFDGFSSAQKNQEQLLTLASILREEGKVFDEKVYYTA
          SLYLP.AQQ..PP.P.EPGVFI.DRAEMTVF.RSF.GFS.AQKNQE.LLTLASILREEGKVF.EKVYYTA
Retrocopy SLYLPSAQQPDPPKPVEPGVFIQDRAEMTVFVRSFNGFSNAQKNQERLLTLASILREEGKVFYEKVYYTA

Parental  -GYSSPFQLLDRNNEVWLIQK-NEPSKENE
          .GY.S.FQLLDRNN.V.LIQK.NE..KENE
Retrocopy >GYNSSFQLLDRNNKV*LIQK<NEDAKENE

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	27.61 RPM
SRP012922_cerebellum	0.00 RPM	3.85 RPM
SRP012922_heart	0.00 RPM	3.71 RPM
SRP012922_kidney	0.00 RPM	31.76 RPM
SRP012922_liver	0.00 RPM	14.40 RPM
SRP012922_lung	0.00 RPM	17.26 RPM
SRP012922_quadricep_muscle	0.00 RPM	7.44 RPM
SRP012922_spleen	0.11 RPM	4.58 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_1268 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000019060	1 retrocopy	retro_cjac_2727,
Dasypus novemcinctus	ENSDNOG00000008868	1 retrocopy	retro_dnov_1268 ,
Echinops telfairi	ENSETEG00000009265	1 retrocopy	retro_etel_973,
Homo sapiens	ENSG00000051620	1 retrocopy	retro_hsap_2333,
Gorilla gorilla	ENSGGOG00000001584	1 retrocopy	retro_ggor_1770,
Loxodonta africana	ENSLAFG00000013501	1 retrocopy	retro_lafr_752,
Otolemur garnettii	ENSOGAG00000005010	1 retrocopy	retro_ogar_2762,