RetrogeneDB ID: retro_tbel_2898

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_122857:72067..72346(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RBM18
• Ensembl ID: ENSTBEG00000016520
• Aliases: None
• Description: RNA binding motif protein 18 [Source:HGNC Symbol;Acc:28413]

Sequence

>retro_tbel_2898
AAGGTGGTGGTGCCATGCTCACATGGCCAGGTACAGACAGGCAATCACAACAATGACAGCTCCTTCCGACAGTCTAGAGC
CATCCTCAAGCACTGAGCTTACTCAGTCTAACCCAAGCATCACCGCAAAGGTTAAAGTTATTGAAGCAAAGTTGAAAATG
ATGGCGGATGGAAAATCCTGATGCCACCTATCTAGCCATGCCTGTTAATTCCAACTGTAAGCCACCAGACTAAAAAGAGG
ACTACTCTTTACTCTAGGGCAGCTTGGAAACCTCAGAGG

Alignment

ORF - retro_tbel_2898 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.14 %
• Parental protein coverage: 61.18 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  KLVVRWAHAQVKRYDHNKND-KILPI-SLEPSSSTEPTQSNLSVTA-KIKAIEAKLK-MMAENPDAEYPA
          K.VV...H.QV....HN.ND...LP..SLEPSSSTE.TQSN.S.TA...K......K....ENPDA.Y.A
Retrocopy KVVVPCSHGQVQTGNHN-ND<QLLPT<SLEPSSSTELTQSNPSITA>RLKLLKQS*K*WRMENPDATYLA

Parental  APVYSYFKPPD-KKRTTPYSRTAWKSRR
          .PV.S..KPPD.KKRTT.YSR.AWK..R
Retrocopy MPVNSNCKPPD>KKRTTLYSRAAWKPQR

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_2898 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2898 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000013811	1 retrocopy	retro_cpor_237,
Myotis lucifugus	ENSMLUG00000004794	1 retrocopy	retro_mluc_298,
Monodelphis domestica	ENSMODG00000019688	1 retrocopy	retro_mdom_1462,
Oryctolagus cuniculus	ENSOCUG00000008527	1 retrocopy	retro_ocun_290,
Otolemur garnettii	ENSOGAG00000015104	1 retrocopy	retro_ogar_846,
Ochotona princeps	ENSOPRG00000010381	2 retrocopies	retro_opri_1123, retro_opri_360,
Ictidomys tridecemlineatus	ENSSTOG00000022388	1 retrocopy	retro_itri_1882,
Tupaia belangeri	ENSTBEG00000016520	1 retrocopy	retro_tbel_2898 ,