RetrogeneDB ID: retro_tbel_4621

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_93700:354..842(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPL45
• Ensembl ID: ENSTBEG00000000585
• Aliases: None
• Description: mitochondrial ribosomal protein L45 [Source:HGNC Symbol;Acc:16651]

Sequence

>retro_tbel_4621
ATCTTCATTGAAGCTCACATTGTCTAAACAACTCAGACCATAACTGGCGTCATACCTTGGTAACTGAGAACTGCTTTCTG
GACATGGTCTGGGACATCAGATGTAAGACTGTGTGCTGGAGCTTCATGGAATCTTTAGAGCCACTTTAAGTGATCCAGAT
CTGCTGTTCAACTCTGGTGAACCAGGGCAACATGCAAGGCCTGGTCACCACCTGCATGCACAGCCAGCAGACTCTGGCAA
TCTATGACTGGTTTGATCAGTTGATGTATAGGCAGGAAGATATGTCCAAGGATGTCCTAGAGTATGTCACATTTGAAAAG
CATCTGATGAAAACCTATGGGAGCTGGAGAATGCACAGCAAGGTTGTTCTGCAGTGAGCACCCTGTAAGCAGCCCATTCT
TAAGACATTCATGATCCCTGGTCCTCAGCTGAAACCCTCGGAAGACTATGAAGAGGCTTAAGAAGAAGCACAGAAGCTTC
AGCAAGCC

Alignment

ORF - retro_tbel_4621 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.95 %
• Parental protein coverage: 53.27 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  IFIEAHL-CLNNSDHDRLHTLVTEHCFPDMVWDLKYKTVRWSFVESLEPPQVVQVRCSSLVNQGNMYGQV
          IFIEAH..CLNNSDH...HTLVTE.CF.DMVWD...KTV.WSF.ESLEP..V.Q..CS.LVNQGNM.G.V
Retrocopy IFIEAHI<CLNNSDHNWRHTLVTENCFLDMVWDIRCKTVCWSFMESLEPL*VIQICCSTLVNQGNMQGLV

Parental  TVRMHTRQTLAIYDRFGRLMYGQEDVPKDVLEYVVFEKHLSNPYGSWRMHGKVVPQWAPPKQPILKTVMI
          T..MH..QTLAIYD.F..LMY.QED..KDVLEYV.FEKHL...YGSWRMH.KVV.Q.AP.KQPILKT.MI
Retrocopy TTCMHSQQTLAIYDWFDQLMYRQEDMSKDVLEYVTFEKHLMKTYGSWRMHSKVVLQ*APCKQPILKTFMI

Parental  PGPQLKPWEDYEGAQGEAHKPQLA
          PGPQLKP.EDYE.A..EA.K.Q.A
Retrocopy PGPQLKPSEDYEEA*EEAQKLQQA

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_4621 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_4621 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 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000005808	2 retrocopies	retro_fcat_1677, retro_fcat_283,
Monodelphis domestica	ENSMODG00000012560	1 retrocopy	retro_mdom_403,
Nomascus leucogenys	ENSNLEG00000000530	1 retrocopy	retro_nleu_1967,
Otolemur garnettii	ENSOGAG00000015816	1 retrocopy	retro_ogar_1029,
Pan troglodytes	ENSPTRG00000009065	1 retrocopy	retro_ptro_107,
Ictidomys tridecemlineatus	ENSSTOG00000000304	2 retrocopies	retro_itri_102, retro_itri_1575,
Tupaia belangeri	ENSTBEG00000000585	1 retrocopy	retro_tbel_4621 ,
Vicugna pacos	ENSVPAG00000004977	1 retrocopy	retro_vpac_512,