RetrogeneDB ID: retro_tbel_312

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_171:51894..52243(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTBEG00000017492
• Aliases: None
• Description: None

Sequence

>retro_tbel_312
GAAAACAGGTGCCAGGGTAAAAATGAGAATAAATCCGAAAAGAAAGTAGTCATAGAAGAGGATGGACAAGAGCATAGTCA
GGTAATCAACATGCTGGGATATGGACAATTAGAAGCAATACATTTCAATGGTGGTCAGAGGTTATCTATACAGAGGAAAA
CTAAGAAAAAAGATTTACCCTTAGACATTATATTGGTTGGACTCCAGAACTATCAGGACAACAAAGGTGATAAAATTTTA
AAATACAATGCAGATGAAGCTAAAAGGCTAGGGACATACAGCAAGCTTTCAGAACATGCCTAAGCCCAATAAAACAGACA
CATTTGGTCCTGGAGATGGTGATGATATA

Alignment

ORF - retro_tbel_312 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.84 %
• Parental protein coverage: 86.96 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KNRRRGKNENESEKRELVFKEDGQEYAQVI-MLGNGRLEAMCFDGVMRLCHIRRERWRKKVWINTSDIIL
          .NR..GKNEN.SEK...V..EDGQE..QVI.MLG.G.LEA..F.G..RL..I.R....K.......DIIL
Retrocopy ENRCQGKNENKSEKK-VVIEEDGQEHSQVINMLGYGQLEAIHFNGGQRLS-IQRKTKKKDLPL---DIIL

Parental  VGLRDYQDNKADVILKYNADEARSLKAYGELPEHA-KINETDTFGPGDDDEI
          VGL..YQDNK.D.ILKYNADEA..L..Y..L.EHA.K.N.TDTFGPGD.D.I
Retrocopy VGLQNYQDNKGDKILKYNADEAKRLGTYSKLSEHA>KPNKTDTFGPGDGDDI

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_312 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_312 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 12 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000173674	2 retrocopies	retro_hsap_1431, retro_hsap_350,
Latimeria chalumnae	ENSLACG00000015565	1 retrocopy	retro_lcha_65,
Microcebus murinus	ENSMICG00000004110	2 retrocopies	retro_mmur_183, retro_mmur_197,
Myotis lucifugus	ENSMLUG00000012977	2 retrocopies	retro_mluc_250, retro_mluc_3,
Monodelphis domestica	ENSMODG00000027820	1 retrocopy	retro_mdom_274,
Mus musculus	ENSMUSG00000067194	1 retrocopy	retro_mmus_264,
Nomascus leucogenys	ENSNLEG00000009913	1 retrocopy	retro_nleu_1845,
Otolemur garnettii	ENSOGAG00000008182	1 retrocopy	retro_ogar_128,
Pan troglodytes	ENSPTRG00000022504	1 retrocopy	retro_ptro_978,
Rattus norvegicus	ENSRNOG00000005736	1 retrocopy	retro_rnor_24,
Sus scrofa	ENSSSCG00000029864	1 retrocopy	retro_sscr_948,
Tupaia belangeri	ENSTBEG00000017492	6 retrocopies	retro_tbel_1604, retro_tbel_312 , retro_tbel_3762, retro_tbel_4137, retro_tbel_4712, retro_tbel_798,