RetrogeneDB ID: retro_tbel_1594

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_5185:205129..205451(+)
• Located in intron of: ENSTBEG00000017622

Retrocopy information

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

Parental gene information

• Parental gene symbol: C11orf73
• Ensembl ID: ENSTBEG00000009192
• Aliases: None
• Description: chromosome 11 open reading frame 73 [Source:HGNC Symbol;Acc:26938]

Sequence

>retro_tbel_1594
GAGGGAAGCCAATACCTCTTTTGAGCTATGAATATTGTGTGAACTCCATCTGTTGCTCAGATTGGAATTTCCATGGAGTT
ATTTGACAGTCTGGCTCCACAGTCTTCTATAAACAATGCTGCTGTATCCTCAGTTGACTCATTAACTCAGTTCACAGAAA
AGGTATTGGACAGCCTTGACAATTTTGCTTCATCATTTGCTGTCTCTCAGGCCCAAAAGACACCAAGTCCATCTGAAATG
TTCATTCTGGCCAATGTGGTTCTGAGATGGTATGAAAACTTTCAAAGATAGACTACCACAGAACTCTTTGTATTGAAAAA
CC

Alignment

ORF - retro_tbel_1594 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.85 %
• Parental protein coverage: 54.31 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EGSQHPFGAMNIVRTPSVAQIGISVELLDSLAQQTPVGNAAVSSVDSFTQFTQKMLDNFYNFASSFAVSQ
          EGSQ..F.AMNIV.TPSVAQIGIS.EL.DSLA.Q....NAAVSSVDS.TQFT.K.LD...NFASSFAVSQ
Retrocopy EGSQYLF*AMNIV*TPSVAQIGISMELFDSLAPQSSINNAAVSSVDSLTQFTEKVLDSLDNFASSFAVSQ

Parental  AQMTPSPSEMFIPANVVLKWYENFQR-RLAQNPLFWKT
          AQ.TPSPSEMFI.ANVVL.WYENFQR.RL.QN.L..KT
Retrocopy AQKTPSPSEMFILANVVLRWYENFQR>RLPQNSLY*KT

Legend:

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

Expression

RNA-Seq

Tupaia belangeri was not studied using RNA-Seq expression data.

ChIP-Seq

Tupaia belangeri was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_tbel_1594 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_1594 was not experimentally validated.

Homology

Retrocopy orthology:

Tupaia belangeri 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 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000015605	1 retrocopy	retro_ecab_720,
Homo sapiens	ENSG00000149196	1 retrocopy	retro_hsap_4658,
Gorilla gorilla	ENSGGOG00000023168	1 retrocopy	retro_ggor_2891,
Myotis lucifugus	ENSMLUG00000016260	1 retrocopy	retro_mluc_784,
Mus musculus	ENSMUSG00000062797	1 retrocopy	retro_mmus_3722,
Nomascus leucogenys	ENSNLEG00000016224	1 retrocopy	retro_nleu_1095,
Oryctolagus cuniculus	ENSOCUG00000013108	2 retrocopies	retro_ocun_1147, retro_ocun_280,
Pongo abelii	ENSPPYG00000003746	1 retrocopy	retro_pabe_3618,
Pan troglodytes	ENSPTRG00000004144	1 retrocopy	retro_ptro_3094,
Tupaia belangeri	ENSTBEG00000009192	2 retrocopies	retro_tbel_1594 , retro_tbel_3248,
Tursiops truncatus	ENSTTRG00000012267	1 retrocopy	retro_ttru_562,