RetrogeneDB ID: retro_meug_80

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: GeneScaffold_1780:16626..17256(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARHGAP40
• Ensembl ID: ENSMEUG00000005260
• Aliases: None
• Description: Rho GTPase activating protein 40 [Source:HGNC Symbol;Acc:16226]

Sequence

>retro_meug_80
AAAGTAAAAGGCCGAGAAAATGGACTTTTTGGTGTTCCACTTACTGTCCTGTTGGAAAATGATCAAAAGAAGTTCCCTGG
AATTAAAGTTCCTCTCATCTTCCAAAAACTTTTGCAGAAACTTGAAGAAACAGGTTTGGAAACAGAAGGAATCCTTCGAG
TCCCAGGATCTGCATCCAGAGTCAAGAACCTCCACCAAGAACTTGAAAGCAAATTTTATGAAGATACGTTTGATTGGGAC
CAAGTCTGAAACAACGATGCAGCAGGACTGCTAAAGATGTTTATCAGAGACCTTCCCAGCCCTCTCTTTACTGTGGAATA
TCTGCCTGCCTTCATTGCCTTAGTGGAAAGAATCTCCAAGATCAAATTGCAGTTACAAGCTTTGCACCTTTTGATTATGC
TTCTGCCTGATGCCAATAGAGATACTGCCAAGGCCTTCCTGATATTCCTCAAGAAAGTGGTTGCTAATGAAGGGAAAAAC
AAAAAGAGTTTGTGGAATGTTTCCATGATCGTTGCACCAAATCTCTTCATCTATAAAGGCAAACGCTCCAATCAAGAAGA
GATGCAGGCCGCTGCTACCACTGCACACATTGTCTGGCTCTTGATTAGGTACCAGGATATTTTGTGGACG

Alignment

ORF - retro_meug_80 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.75 %
• Parental protein coverage: 87.97 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KWKATENRLFGVPLSTLLETDQKVVPHTQVPLILQALLSCLEKRGLDTEGILRVSGSQTRIKSLEQKLER
          K.K..EN.LFGVPL..LLE.DQK..P...VPLI.Q.LL..LE..GL.TEGILRV.GS..R.K.L.Q.LE.
Retrocopy KVKGRENGLFGVPLTVLLENDQKKFPGIKVPLIFQKLLQKLEETGLETEGILRVPGSASRVKNLHQELES

Parental  EFYAGLFNWDEVHQNDASGLLKRFIRELPTPLLTAEYLPAF-TVVQNIPDLKQRLQALNLLILILPEANR
          .FY...F.WD.V..NDA.GLLK.FIR.LP.PL.T.EYLPAF...V..I...K..LQAL.LLI..LP.ANR
Retrocopy KFYEDTFDWDQV*NNDAAGLLKMFIRDLPSPLFTVEYLPAFIALVERISKIKLQLQALHLLIMLLPDANR

Parental  NTLKALLEFLRKVVDREKKNKMTLWNVSMVMAPNLFMHKGQPPRIPEGKGKQLAEGAADVVRAMIHYQDL
          .T.KA.L.FL.KVV..E.KNK..LWNVSM..APNLF..KG......E....Q.A...A..V...I.YQD.
Retrocopy DTAKAFLIFLKKVVANEGKNKKSLWNVSMIVAPNLFIYKGKRSNQEE---MQAAATTAHIVWLLIRYQDI

Parental  LWT
          LWT
Retrocopy LWT

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_80 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_80 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.

---

Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000005260	1 retrocopy	retro_meug_80 ,