RetrogeneDB ID: retro_tbel_3715

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_149166:77369..77753(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM19A1
• Ensembl ID: ENSTBEG00000012443
• Aliases: None
• Description: family with sequence similarity 19 (chemokine (C-C motif)-like), member A1 [Source:HGNC Symbol;Acc:21587]

Sequence

>retro_tbel_3715
ATGGCAATGGTCTCTGCAATGTCCTGGGTCCTGTATTTGTGGATAAGTGCTTGCGCAATGCTACTCTGCCATGGATCCCT
ACAGCATACATTCCAGCAGCAGCACCTGCATGGACCAGAAGGAGGGACGTGTAAAGTCATAGCAGCACACAGATGTTGTA
ACAAGAATTGCATTGAGAAACGGTCACAAATAGTAAAATGTTCCTGCCTACCTGGAAAAGCGGCTGGAACAACAAGAAAC
TGACCTTCCTGTGTTGACGCCTCCAAAGTGATTGGAAAATGGTGGTGTGAGATGGATTTTTGTCTAGAGGGAGAAGAATG
TAAGACACTCCCTGACAATTCTGTATGGATGTGTGCTACATGCAACAAAATTAAGACCACAAAA

Alignment

ORF - retro_tbel_3715 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.84 %
• Parental protein coverage: 96.97 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAMVSAMSWVLYLWISACAMLLCHGSLQHTFQQQHLHRPEGGTCEVIAAHRCCNKNRIEERSQTVKCSCL
          MAMVSAMSWVLYLWISACAMLLCHGSLQHTFQQQHLH.PEGGTC.VIAAHRCCNKN.IE.RSQ.VKCSCL
Retrocopy MAMVSAMSWVLYLWISACAMLLCHGSLQHTFQQQHLHGPEGGTCKVIAAHRCCNKNCIEKRSQIVKCSCL

Parental  PGKVAGTTRNRPSCVDASIVIGKWWCEMEPCLEGEECKTLPDNSGWMCATGNKIKTTR
          PGK.AGTTRN.PSCVDAS.VIGKWWCEM..CLEGEECKTLPDNS.WMCAT.NKIKTT.
Retrocopy PGKAAGTTRN*PSCVDASKVIGKWWCEMDFCLEGEECKTLPDNSVWMCATCNKIKTTK

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_3715 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_3715 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tupaia belangeri	ENSTBEG00000012443	1 retrocopy	retro_tbel_3715 ,