RetrogeneDB ID: retro_tbel_3288

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_136175:6427..7107(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: COQ5
• Ensembl ID: ENSTBEG00000009255
• Aliases: None
• Description: coenzyme Q5 homolog, methyltransferase (S. cerevisiae) [Source:HGNC Symbol;Acc:28722]

Sequence

>retro_tbel_3288
ATGGTGGCCCGTGGGAGCTGCACGTTATGGAGTTACTATGGCCGTGGCAGGTCTCGGGCAATATGGAGTGGCTGCATCCC
CTACTTTTGTAGTTCCTGGCATGGGGCCTTTCTGGGTGCGCGGCTTTTATCCCAAGAGAAGCGGGCAACGGAAACGCACT
TCGGGTTTGAGACTGTCTCGGAGGAAGAGAAGGGGAGCAAAGTATATCAGGTGTTTGAAAATGTGGTCAAGAAGTATGAC
GTGATGAATGATATGATGAGTCTTGGAATCCATCGTGTCTGGAAGGATCTGCTGCTCTTGAAGATGCACCCATTTCCTGG
GACCAAGCTCCTTGATGTTGCTGGAGGCACAGGTGACATGCCTTCTGGTTCCTTAATTATGTTCAAGCACAGCATCGGAA
AAAGCAGAAGAGGCAGTTAAGAGGCCAACAAAATTTATCCTGGGAAGAAATTGCCAAAACATAACAAAATGAAGAGGATT
CCTTGGGCGGTTCCCATGTCATGATCTGTGATATTAACAAGGAGATGCTAAAGGTTGGCAAGCAGAAAGCCATTGCTCAA
GGATACAAAGCTAGACTTGCGTGGGTACTAGGAGATGCTGAAGAACTGCCCTTCGATGATGACAAGTTTGATGTTTACAC
CATTGCCTTTGGGATCCGGAATGTCACACACATCGATCGG

Alignment

ORF - retro_tbel_3288 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.86 %
• Parental protein coverage: 69.42 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAARGSCTLWSYYGRGRSRAIRSGWIPGFRSSWHGASLGARLLSQEKRATETHFGFETVSEEEKGGKVYQ
          M.ARGSCTLWSYYGRGRSRAI.SG.IP.F.SSWHGA.LGARLLSQEKRATETHFGFETVSEEEKG.KVYQ
Retrocopy MVARGSCTLWSYYGRGRSRAIWSGCIPYFCSSWHGAFLGARLLSQEKRATETHFGFETVSEEEKGSKVYQ

Parental  VFENVAKKYDVMNDMMSLGIHRVWKDLLLLKMHPFPGTKLLDVAGGTGDI-AFRFLNYVQAQHQKKQKRQ
          VFENV.KKYDVMNDMMSLGIHRVWKDLLLLKMHPFPGTKLLDVAGGTGD..AF.FLNYVQAQH.KKQKRQ
Retrocopy VFENVVKKYDVMNDMMSLGIHRVWKDLLLLKMHPFPGTKLLDVAGGTGDM<AFWFLNYVQAQHRKKQKRQ

Parental  LRGQQNLSWEEIAKTYQNEEDSLGGSHVMICDINKEMLKVGKQKAIAQGYKAGLAWVLGDAEELPFDDDK
          LRGQQNLSWEEIAKT.QNEEDSLGGSHVMICDINKEMLKVGKQKAIAQGYKA.LAWVLGDAEELPFDDDK
Retrocopy LRGQQNLSWEEIAKT*QNEEDSLGGSHVMICDINKEMLKVGKQKAIAQGYKARLAWVLGDAEELPFDDDK

Parental  FDVYTIAFGIRNVTHIDR
          FDVYTIAFGIRNVTHIDR
Retrocopy FDVYTIAFGIRNVTHIDR

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_3288 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_3288 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.

---

Parental genes homology:

Parental genes homology involve 3 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000001205	4 retrocopies	retro_cjac_1277, retro_cjac_3050, retro_cjac_3383, retro_cjac_3415,
Microcebus murinus	ENSMICG00000006371	1 retrocopy	retro_mmur_1327,
Tupaia belangeri	ENSTBEG00000009255	1 retrocopy	retro_tbel_3288 ,