RetrogeneDB ID: retro_meug_372

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold106785:5976..6357(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NUCKS1
• Ensembl ID: ENSMEUG00000007829
• Aliases: None
• Description: nuclear casein kinase and cyclin-dependent kinase substrate 1 [Source:HGNC Symbol;Acc:29923]

Sequence

>retro_meug_372
CAGTTTTAAGAATCTGATGATACAGATGAAGATCATGGAAGAGATTCAGCCCTTGTAGCTAAGAAAATCACATCATCACC
CTGAGTGGCTAGAAACAAGCAGTCTGGGAAAAATTCACAGGATGATCATGAGGACTCTGAAGAAAAAGAGGTGAAAACCA
AGAAGGGTGATTCATAGTCACCAGGAGATAGCAAAGGTCAGAAAAAAGGTCACAAAAATGTTTACCAACAACATCAGTCA
GCATTCAAAGCAGCTTCTGAGTAGGGAAAGATGCCCATGGAAGAGGAGGGCAGTAAGGAACAAGAAGGGGAAGAAGAAAA
ATCATTCCAGAAGGATTCCAACAGTGATGAAGACTTCCTAATGGAAGGTGATATTGATAAT

Alignment

ORF - retro_meug_372 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.31 %
• Parental protein coverage: 54.04 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QFQESDDADEDYGRDSAPPAKKIRSSPREAKNKRRSGKNSQEDSEDSEEKDVKTKKDDSHSPEDSE-DEK
          QF.ESDD.DED.GRDSA..AKKI.SSP..A.NK..SGKNSQ.D.EDSEEK.VKTKK.DS.SP.DS....K
Retrocopy QF*ESDDTDEDHGRDSALVAKKITSSP*VARNK-QSGKNSQDDHEDSEEKEVKTKKGDS*SPGDSKGQKK

Parental  DHKNVHQWYQAASKAASK--QRLMEDVGSEEEKEEEKEAPFQRKDSGSDEDILMNDDDDD
          .HKNV.Q..Q.A.KAAS......ME..GS.E..E.E.E..FQ.KDS.SDED.LM..D.D.
Retrocopy GHKNVYQQHQSAFKAASE*GKMPMEEEGSKEQ-EGEEEKSFQ-KDSNSDEDFLMEGDIDN

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq

Macropus eugenii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_meug_372 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_372 was not experimentally validated.

Homology

Retrocopy orthology:

Macropus eugenii 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 16 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000012950	1 retrocopy	retro_amel_339,
Bos taurus	ENSBTAG00000008001	1 retrocopy	retro_btau_541,
Choloepus hoffmanni	ENSCHOG00000001855	1 retrocopy	retro_chof_437,
Dasypus novemcinctus	ENSDNOG00000017212	2 retrocopies	retro_dnov_348, retro_dnov_6,
Dipodomys ordii	ENSDORG00000003183	1 retrocopy	retro_dord_688,
Homo sapiens	ENSG00000069275	1 retrocopy	retro_hsap_521,
Gorilla gorilla	ENSGGOG00000026655	1 retrocopy	retro_ggor_480,
Macropus eugenii	ENSMEUG00000007829	2 retrocopies	retro_meug_2015, retro_meug_372 ,
Macaca mulatta	ENSMMUG00000005645	1 retrocopy	retro_mmul_422,
Monodelphis domestica	ENSMODG00000001832	1 retrocopy	retro_mdom_980,
Nomascus leucogenys	ENSNLEG00000014564	1 retrocopy	retro_nleu_2576,
Pan troglodytes	ENSPTRG00000001904	1 retrocopy	retro_ptro_389,
Rattus norvegicus	ENSRNOG00000047287	2 retrocopies	retro_rnor_2337, retro_rnor_2338,
Tupaia belangeri	ENSTBEG00000015641	1 retrocopy	retro_tbel_2591,
Tarsius syrichta	ENSTSYG00000000910	1 retrocopy	retro_tsyr_987,
Vicugna pacos	ENSVPAG00000003751	1 retrocopy	retro_vpac_313,