RetrogeneDB ID: retro_meug_1985

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold7669:9895..10322(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RAB1B
• Ensembl ID: ENSMEUG00000000023
• Aliases: None
• Description: RAB1B, member RAS oncogene family [Source:HGNC Symbol;Acc:18370]

Sequence

>retro_meug_1985
AGGATTCTAAAAGCACCNNNNNNNNNNGTGGGCAAGTCCTTCCTGCTGCTGTGCTTCTCATACAACATCCACTCTGGCAA
TCACGTCAGCACCATCATGGTGGACTTCAAAATCCACACAACCCAACTGTATTGTAAGACCATGAAACTGCACATCTGGG
ACACAGCTGGTCAGGCATGCTTCCACATCATCACCTCGAGCTACTTCTGCAGAGCCCATGGCATCATCTTGGTGTATGAT
GTAAGCGACTCTGAGTCCTTATGCCAATGTAAAGCAGTGGCCAATGGAGGTGGAGTGCTACCCCAGGGAAAGCACCAATA
AGCTACTGGTGGGCAAGAAGAGCAACCTTATTAATGAGAAGGTGGTAGACCATGTCATGGCCAAGGAGTTTGCTGATTCC
CTAGACATCTCCTTCCTGGAGACCAGC

Alignment

ORF - retro_meug_1985 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.44 %
• Parental protein coverage: 94.04 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYR
          ..L......VGKS.LLL.F..........STI.VDFKI.T..L..KT.KL.IWDTAGQ..F..ITSSY..
Retrocopy RILKAXXXXVGKSFLLLCFSYNIHSGNHVSTIMVDFKIHTTQLYCKTMKLHIWDTAGQACFHIITSSYFC

Parental  GAHGIIVVYDVTDQES-YANVKQWLEEINRYASENVNKLLVGNKSDLTTKKVVDNPTAKEFADSLGIPFL
          .AHGII.VYDV.D.ES.YANVKQW..E...Y..E..NKLLVG.KS.L...KVVD...AKEFADSL.I.FL
Retrocopy RAHGIILVYDVSDSES>YANVKQWPMEVECYPRESTNKLLVGKKSNLINEKVVDHVMAKEFADSLDISFL

Parental  ETS
          ETS
Retrocopy ETS

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_1985 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1985 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 10 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000001599	1 retrocopy	retro_cjac_931,
Homo sapiens	ENSG00000174903	1 retrocopy	retro_hsap_4252,
Gorilla gorilla	ENSGGOG00000009755	2 retrocopies	retro_ggor_1792, retro_ggor_2850,
Macropus eugenii	ENSMEUG00000000023	1 retrocopy	retro_meug_1985 ,
Monodelphis domestica	ENSMODG00000008371	1 retrocopy	retro_mdom_196,
Pongo abelii	ENSPPYG00000003031	1 retrocopy	retro_pabe_3386,
Pan troglodytes	ENSPTRG00000003915	1 retrocopy	retro_ptro_2892,
Sarcophilus harrisii	ENSSHAG00000010376	1 retrocopy	retro_shar_68,
Ictidomys tridecemlineatus	ENSSTOG00000011052	1 retrocopy	retro_itri_1677,
Drosophila melanogaster	FBgn0016700	1 retrocopy	retro_dmel_36,