RetrogeneDB ID: retro_tbel_1490

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_4868:42154..42415(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTBEG00000008487
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SRP9
• Ensembl ID: ENSTBEG00000005634
• Aliases: None
• Description: signal recognition particle 9kDa [Source:HGNC Symbol;Acc:11304]

Sequence

>retro_tbel_1490
ATGCTGCAGTACCAGACCTGGAGGAGGGGGGGTGTGTTCAGCCCTGCGGCCTAGAAGCTCTACCTGTCCGCCCCTATGAA
GGCGCGTGTGGTTCTCAGATATAGCCATTCTACTGGGAGTTTGTGTATTAAAGTAACAGATGATTTAGTCTGTTTGATGT
ATAGAATAGATCGAGCCCAAGATGTAAAGAAGACTGAGATTAGTCAACCAATGTGACTTATGGTAGCCAAGGAATCCTGC
AGTGTTGCCGTGGAATCAGAC

Alignment

ORF - retro_tbel_1490 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.16 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MPQYQTWEE---FSRAAEKLYLADPMKARVVLKYRHSDGSLCIKVTDDLVCLMYRTDQAQDVKKIEKFHS
          M.QYQTW.....FS.AA.KLYL..PMKARVVL.Y.HS.GSLCIKVTDDLVCLMYR.D.AQDVKK.E...S
Retrocopy MLQYQTWRRGGVFSPAA*KLYLSAPMKARVVLRYSHSTGSLCIKVTDDLVCLMYRIDRAQDVKKTE--IS

Parental  QLMRLMVAKESRSVAMESD
          Q.M.LMVAKES.SVA.ESD
Retrocopy QPM*LMVAKESCSVAVESD

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_1490 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_1490 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 4 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000012291	1 retrocopy	retro_etel_272,
Otolemur garnettii	ENSOGAG00000001752	1 retrocopy	retro_ogar_230,
Pteropus vampyrus	ENSPVAG00000008142	2 retrocopies	retro_pvam_1064, retro_pvam_351,
Tupaia belangeri	ENSTBEG00000005634	3 retrocopies	retro_tbel_1490 , retro_tbel_4067, retro_tbel_4739,