RetrogeneDB ID: retro_meug_2160

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold96797:3886..4277(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RAB2B
• Ensembl ID: ENSMEUG00000010489
• Aliases: None
• Description: RAB2B, member RAS oncogene family [Source:HGNC Symbol;Acc:20246]

Sequence

>retro_meug_2160
TTGCTACAGTTTACAGATTAGAGGTTCCAGTCAGGGCATGACCTTACTATTGGTGTAGAATTTGGTGCTTCAATGGCTAT
TGATAGAAAACAAATAAAGCTTCAAATATGGGATACAGCAGGGCAAGAATCCTTCTCTTCCATTACAAGGTCATGTCATA
GAGGTATAGCAGTATCTTTACTAGTGTTTGATATTACTAGAGAGATACATTCAGCCACTTAATAACTTGGTTAGAAAATG
CTTACCAGAATTCCAACTCCAAAATCATAGTTATGAGAATAAAACTGATTTAGAATCTAGGAGAGAAGTTAAAAAAGGTG
AATTGGTTGCCCGAGAACATGGGTTTTTCTTTATGACAACTTCCCTTAGGACTCCTTCCAATGTAGAAGAG

Alignment

ORF - retro_meug_2160 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.12 %
• Parental protein coverage: 62.96 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITR-R
          LLQFTD.RFQ..HDLTIGVEFGA.M..ID.KQIKLQIWDTAGQESF.SITRS..RG.A..LLV.DITR.R
Retrocopy LLQFTD*RFQSGHDLTIGVEFGASMA-IDRKQIKLQIWDTAGQESFSSITRSCHRGIAVSLLVFDITR<R

Parental  ETFNHLTSWLEDARQHSSSNMVIMLIG-NKSDLESRRDVKREEGEAFAREHGLIFMETSAKTASNVEE
          .TF.HL..WLE.A.Q...SN..I.....NK.DLESRR.VK...GE..AREHG..FM.TS..T.SNVEE
Retrocopy DTFSHLITWLENAYQN--SNSKIIVMR<NKTDLESRREVKK--GELVAREHGFFFMTTSLRTPSNVEE

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_2160 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_2160 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 9 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000044207	1 retrocopy	retro_btau_991,
Canis familiaris	ENSCAFG00000005641	1 retrocopy	retro_cfam_1510,
Choloepus hoffmanni	ENSCHOG00000000710	3 retrocopies	retro_chof_2314, retro_chof_706, retro_chof_900,
Cavia porcellus	ENSCPOG00000026575	1 retrocopy	retro_cpor_839,
Macropus eugenii	ENSMEUG00000010489	2 retrocopies	retro_meug_2160 , retro_meug_91,
Macropus eugenii	ENSMEUG00000016598	2 retrocopies	retro_meug_1684, retro_meug_770,
Myotis lucifugus	ENSMLUG00000001902	3 retrocopies	retro_mluc_1243, retro_mluc_1251, retro_mluc_2103,
Sorex araneus	ENSSARG00000004969	1 retrocopy	retro_sara_97,
Ictidomys tridecemlineatus	ENSSTOG00000001886	1 retrocopy	retro_itri_468,