RetrogeneDB ID: retro_tbel_4

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_100182:7705..8350(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTBEG00000016773
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTBEG00000012104
• Aliases: None
• Description: None

Sequence

>retro_tbel_4
GCTGGATGTTACTACAGGCTCAGTGACGTGACAGAGGCTGAGCAGCAGCAGCTCATTGACCATTTTCTATTCGATATGCC
TGCGTCCCCATGGCTGACTACAGCAGGAATGCCTCAAGACTGGCCAGATGCTCGTGGAATCTGGCACGACAACGAGAAGA
GCTTCTTGATCTGGGTGAATGAGGAGGCTTACACCCAGGTCACCTCCACGGAGAAGGGTGGCAACATGAAGAGAGTGTTC
GAAGGATCCTGCCGAGGCCTCACAGAGGTGGAGCGGTTCATCCAGGAGCATGGCTGGAAGTTCATGTGGGATGAACGTTT
GGGATATATCTCAACCAGTTCGTCTAACCTAGGCACTGGACTTTGGGCAGGAGTGCACATCAAACTGCCCAAGCTAAGCA
AAGCTAGCCGCTTCCCAACAATCCTGGAGAATCCAAGACTCCAAAAGCGTGGTACTGGAGGAGTGAACGCTGCTGCCACA
GGCAACATCTTTGCCATCTCTAACGTGGACTGGCTGGGCAAATCAGAGGTGGAGTTGGTGCAACTGATCATAGACAGAGT
AAACTGTTTGACCAACTGTGAACGGCATCTGGAAAGGGGCCAGGGTATTTGCATCCCTGTACCTCTAGCCCACAGCAAGC
ATTAG

Alignment

ORF - retro_tbel_4 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.07 %
• Parental protein coverage: 51.56 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AGRYYRLSDMTEAEQQQLIDDHFLFDKPVSPLLTAAGMARDWPDARGIWHNNEKSFLIWVNEEDHTRVIS
          AG.YYRLSD.TEAEQQQLID.HFLFD.P.SP.LT.AGM..DWPDARGIWH.NEKSFLIWVNEE..T.V.S
Retrocopy AGCYYRLSDVTEAEQQQLID-HFLFDMPASPWLTTAGMPQDWPDARGIWHDNEKSFLIWVNEEAYTQVTS

Parental  MEKGGNMKRVFERFCRGLKEVERLIQERGWEFMWNERLGYILTCPSNLGTGLRAGVHIKLPLLSKDSRFP
          .EKGGNMKRVFE..CRGL.EVER.IQE.GW.FMW.ERLGYI.T..SNLGTGL.AGVHIKLP.LSK.SRFP
Retrocopy TEKGGNMKRVFEGSCRGLTEVERFIQEHGWKFMWDERLGYISTSSSNLGTGLWAGVHIKLPKLSKASRFP

Parental  KILENLRLQKRGTGGVDTAATGNVFDISNLDRLGKSEVELVQLVIDGVNYLIDCERRLERGQDIRIPAPL
          .ILEN.RLQKRGTGGV..AATGN.F.ISN.D.LGKSEVELVQL.ID.VN.L..CER.LERGQ.I.IP.PL
Retrocopy TILENPRLQKRGTGGVNAAATGNIFAISNVDWLGKSEVELVQLIIDRVNCLTNCERHLERGQGICIPVPL

Parental  AHSKH
          AHSKH
Retrocopy AHSKH

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_4 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_4 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000019748	2 retrocopies	retro_etel_1343, retro_etel_2075,
Macaca mulatta	ENSMMUG00000007870	1 retrocopy	retro_mmul_240,
Tupaia belangeri	ENSTBEG00000012104	1 retrocopy	retro_tbel_4 ,
Tursiops truncatus	ENSTTRG00000005837	1 retrocopy	retro_ttru_1863,