RetrogeneDB ID: retro_tbel_1443

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_4734:5230..5546(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C19orf70
• Ensembl ID: ENSTBEG00000013386
• Aliases: None
• Description: chromosome 19 open reading frame 70 [Source:HGNC Symbol;Acc:33702]

Sequence

>retro_tbel_1443
CTCATCAAGGGCAGCGTGGCGGGGGGTCCTGTGTACCTGGTGTATGACCAGGAGCTGCTGGGGCCAGGCGACAGGAGCCA
GGCAGCCCTGTGGAAGGCAGAGGAGGTGGTGCCCCCGCCATGTACCAGTTCAGTACGTGTGCCAGCAGACGGGTCTGCAG
ATTTCCCAGCTCCAGGCTCCTCCAAAGATTAATTTTCCCAGCTGCGACACCTGGAATTCAGGCATTGTCTGGGTGATGTC
GGCCTTGTCCGTGGCCCCCTCCAAGGCCTGCGAGTACTCCAGGGAGGGCTGGGAGTACACGAAGCAGCGAGCCAAG

Alignment

ORF - retro_tbel_1443 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.64 %
• Parental protein coverage: 99.07 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LIKGSVAGGAVYLVYDQELLGPSDKSQAALRKAEEVVP-PAVYQFSQYLCQQTGLQIPQLPAPPKINFPV
          LIKGSVAGG.VYLVYDQELLGP.D.SQAAL.KAEEVVP.PA.YQFS...........P.........FP.
Retrocopy LIKGSVAGGPVYLVYDQELLGPGDRSQAALWKAEEVVP<PAMYQFSTCASRRV-CRFPSSRLLQRLIFPA

Parental  R-DTWNSGVVRVMSALSVAPSKACEYSREGWEYVKQRAK
          ..DTWNSG.V.VMSALSVAPSKACEYSREGWEY.KQRAK
Retrocopy A<DTWNSGIVWVMSALSVAPSKACEYSREGWEYTKQRAK

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_1443 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_1443 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
Canis familiaris	ENSCAFG00000018796	2 retrocopies	retro_cfam_1706, retro_cfam_756,
Callithrix jacchus	ENSCJAG00000017076	2 retrocopies	retro_cjac_2329, retro_cjac_735,
Felis catus	ENSFCAG00000011836	1 retrocopy	retro_fcat_287,
Loxodonta africana	ENSLAFG00000026050	1 retrocopy	retro_lafr_1241,
Macaca mulatta	ENSMMUG00000028920	1 retrocopy	retro_mmul_251,
Monodelphis domestica	ENSMODG00000001268	1 retrocopy	retro_mdom_1960,
Mustela putorius furo	ENSMPUG00000006136	2 retrocopies	retro_mputfur_1001, retro_mputfur_217,
Procavia capensis	ENSPCAG00000006583	1 retrocopy	retro_pcap_106,
Tupaia belangeri	ENSTBEG00000013386	1 retrocopy	retro_tbel_1443 ,