RetrogeneDB ID: retro_tbel_2155

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_102709:6939..7270(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C11orf74
• Ensembl ID: ENSTBEG00000004277
• Aliases: None
• Description: chromosome 11 open reading frame 74 [Source:HGNC Symbol;Acc:25142]

Sequence

>retro_tbel_2155
AATTTCCTAGACTTAGAAGATGTGGACATGAACTCGGATGAAGAGACGAAGCCCCAAATGAGCAGGGATTTGCTGCTTCC
AGGAGAAGTGGAGGAGGAAGTAAGCACCTTCATTCCTTCTTGTATTCTTCTGGTGACCCAACCTCTCAGCCCTGAAGTGA
AGCCAAAGTCCACTGTAAAAGGAACAGACACAGGAGAAGAGACTCTTGAGATGAAGTTCAGCCCTTCTCACTGGATGAGG
AGTTTGTCTATGACAGTGTGACGCTAACCCCAAGTTCCCTGCTGCAGAGATGGAAGTGGTCAAAGAACTCTCCAAGCAAA
GGAGGAAGAAC

Alignment

ORF - retro_tbel_2155 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.42 %
• Parental protein coverage: 50.68 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  HFLALEDLDMDSDEETKPQMKQDLLLPGEVEEEVSTFTPSCVLLVARPLSPEVKPKPTVKGTDTRDETLG
          .FL.LED.DM.SDEETKPQM..DLLLPGEVEEEVSTF.PSC.LLV..PLSPEVKPK.TVKGTDT..ETL.
Retrocopy NFLDLEDVDMNSDEETKPQMSRDLLLPGEVEEEVSTFIPSCILLVTQPLSPEVKPKSTVKGTDTGEETLE

Parental  -DEVQPFSLDEEFDYDSVTLT-PKFPAAEMEMLRELSKQRREN
          .DEVQPFSLDEEF.YDSVTLT.PKFPAAEME...ELSKQRR.N
Retrocopy <DEVQPFSLDEEFVYDSVTLT<PKFPAAEMEVVKELSKQRRKN

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_2155 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2155 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 9 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000010963	2 retrocopies	retro_dord_388, retro_dord_615,
Homo sapiens	ENSG00000166352	1 retrocopy	retro_hsap_418,
Gorilla gorilla	ENSGGOG00000004773	1 retrocopy	retro_ggor_411,
Macropus eugenii	ENSMEUG00000003065	1 retrocopy	retro_meug_328,
Microcebus murinus	ENSMICG00000008620	1 retrocopy	retro_mmur_383,
Monodelphis domestica	ENSMODG00000019838	1 retrocopy	retro_mdom_1594,
Pongo abelii	ENSPPYG00000003347	1 retrocopy	retro_pabe_302,
Pan troglodytes	ENSPTRG00000003514	2 retrocopies	retro_ptro_2924, retro_ptro_320,
Tupaia belangeri	ENSTBEG00000004277	2 retrocopies	retro_tbel_2155 , retro_tbel_2277,