RetrogeneDB ID: retro_pvam_755

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_10710:12707..13096(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMBIM6
• Ensembl ID: ENSPVAG00000016821
• Aliases: None
• Description: transmembrane BAX inhibitor motif containing 6 [Source:HGNC Symbol;Acc:11723]

Sequence

>retro_pvam_755
ATATTTGTGGCGGCTTCAGGGGCCTATGTCCATGTGGTCACTTATTTCATTCAGGCTGGCCTGTTCTCTGCCCTAGACTC
CATGGAATTGATGATTTAGCTGATGGCAACACCTCATAGCCATAAAACTGAGCAAAAAAAACTGGGACTTCTTGGTGGAT
TTGCTTTTCCTACAGGAGTTGCCCTGGGCCCTGCTCTGGAGTTGTTCATTGCCATAAACCCCAGCATCCTTCCCACTGCC
TTCACTGGCACAGCATTGATCTTCACCTGCTTTTCCCTGAGTATACTTTATGCCAGTTCCATAGCTACCTCTTTCTGGAA
GGTATGTTGATGTCACTCATGAACCTGAAGCTCTTGTCTTCTCTGGGGAATCTTTTCTTTGGACCCATT

Alignment

ORF - retro_pvam_755 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.1 %
• Parental protein coverage: 54.85 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MFVAAAGAYVHVVTHFIQAGLLSALGSLGLMIWLMATPHSHETEQKRLGLLAGFAFLTGVGLGPALELCI
          .FVAA.GAYVHVVT.FIQAGL.SAL.S..LMI.LMATPHSH.TE...LGLL.GFAF.TGV.LGPALEL.I
Retrocopy IFVAASGAYVHVVTYFIQAGLFSALDSMELMI*LMATPHSHKTEXXXLGLLGGFAFPTGVALGPALELFI

Parental  AINPSILPTAFMGTAMIFTCFTLSALYA-RRRSYLFLGGILMSAMSLMLLSSLGNLFFGSI
          AINPSILPTAF.GTA.IFTCF.LS.LYA....SYLFL.G.LMS.M.L.LLSSLGNLFFG.I
Retrocopy AINPSILPTAFTGTALIFTCFSLSILYA<QFHSYLFLEGMLMSLMNLKLLSSLGNLFFGPI

Legend:

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

Expression

RNA-Seq

Pteropus vampyrus was not studied using RNA-Seq expression data.

ChIP-Seq

Pteropus vampyrus was not studied using ChIP-Seq data.

EST

Pteropus vampyrus was not studied using EST data.

TSS

Pteropus vampyrus was not studied using FANTOM5 data.

Lab

retro_pvam_755 was not experimentally validated.

Homology

Retrocopy orthology:

Pteropus vampyrus 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 11 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000018588	1 retrocopy	retro_btau_762,
Canis familiaris	ENSCAFG00000008400	2 retrocopies	retro_cfam_1220, retro_cfam_876,
Callithrix jacchus	ENSCJAG00000021032	1 retrocopy	retro_cjac_272,
Dasypus novemcinctus	ENSDNOG00000007882	2 retrocopies	retro_dnov_164, retro_dnov_857,
Macropus eugenii	ENSMEUG00000015590	4 retrocopies	retro_meug_1076, retro_meug_1706, retro_meug_2157, retro_meug_48,
Monodelphis domestica	ENSMODG00000004277	2 retrocopies	retro_mdom_210, retro_mdom_250,
Otolemur garnettii	ENSOGAG00000005137	2 retrocopies	retro_ogar_1074, retro_ogar_3470,
Pteropus vampyrus	ENSPVAG00000016821	1 retrocopy	retro_pvam_755 ,
Sarcophilus harrisii	ENSSHAG00000010366	1 retrocopy	retro_shar_622,
Ictidomys tridecemlineatus	ENSSTOG00000001165	2 retrocopies	retro_itri_1273, retro_itri_564,
Tarsius syrichta	ENSTSYG00000002427	1 retrocopy	retro_tsyr_916,