RetrogeneDB ID: retro_tbel_3822

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_16849:124697..124969(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTBEG00000003499
• Aliases: None
• Description: None

Sequence

>retro_tbel_3822
AGTCTCTGGAAGGTCGCCAGATCTGTGTGGACCATGCAGGCAAGTCTGCCAGGGAACCAGAGGGGATGCCTTTGGAGCTC
GGGGTGGCAGCTACTCTAGAGGTGGTGGGGGGCAAGGACATGAGATGGTAGGTGTGACAGTTGACCTGGAGGATATGGTT
ATGGGTGTGGACGGTCCAGACTACAAGGGCAGAAGCCAGGGTGGTAATGACCACCACTCAGGAGGAAATTACAGACAATT
ATGACAACTGAGATGAGGCCTGCACACATAAT

Alignment

ORF - retro_tbel_3822 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.16 %
• Parental protein coverage: 55.76 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  SLWMVAKSVWTMQASLPG-EPEGVPLELVVVATLEVVGIKDM-GVAGMTVDLEDMVMGMEGPE-TIAAEA
          SLW.VA.SVWTMQASLPG.EPEG.PLEL.V.ATLEVVG.KDM....G.TVDLEDMVMG..GP..T.A...
Retrocopy SLWKVARSVWTMQASLPG<EPEGMPLELGVAATLEVVGGKDM<EMVGVTVDLEDMVMGVDGPD>TRAEAR

Parental  RVVMTATQEEITETIMTTEMRHAHN
          .V..T.TQEEIT...........HN
Retrocopy VVMTT-TQEEITDNYDN*DEACTHN

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_3822 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_3822 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 6 parental genes, and 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002320	1 retrocopy	retro_cjac_2655,
Echinops telfairi	ENSETEG00000001939	6 retrocopies	retro_etel_1057, retro_etel_1060, retro_etel_1209, retro_etel_1476, retro_etel_169, retro_etel_531,
Microcebus murinus	ENSMICG00000014371	5 retrocopies	retro_mmur_1450, retro_mmur_878, retro_mmur_957, retro_mmur_958, retro_mmur_998,
Macaca mulatta	ENSMMUG00000004439	1 retrocopy	retro_mmul_455,
Sorex araneus	ENSSARG00000003340	1 retrocopy	retro_sara_45,
Tupaia belangeri	ENSTBEG00000003499	10 retrocopies	retro_tbel_100, retro_tbel_1589, retro_tbel_1774, retro_tbel_1779, retro_tbel_1869, retro_tbel_2829, retro_tbel_3822 , retro_tbel_3999, retro_tbel_4268, retro_tbel_427,