RetrogeneDB ID: retro_tbel_1984

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_6129:70632..71222(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DUSP11
• Ensembl ID: ENSTBEG00000014600
• Aliases: None
• Description: dual specificity phosphatase 11 (RNA/RNP complex 1-interacting) [Source:HGNC Symbol;Acc:3066]

Sequence

>retro_tbel_1984
CTCTCTAAGAGCTTTGAGAAGAATCTTGTTCCAGAAGAATGCTTCTCTCCTTTGGATCTTTTAACAAAATTCAAGAACAA
GATGAAGTGCTTGAACTGATTACTGACTTAAACTATATTCAACGCTATTATAAACAGGATTTTCCAGAAACTGTTCATTA
TTTAAAAATTTTTACAGCTGGTCATCAAGTGCCCAATGATGACACTATTTTTAAATTCAAATGTGCTGTTAATAGATTTT
TGAAAGAAAATACAGGTAACAATGAACTCATTGGCATCCACTGTGCTCATGGTTTAAATAGGACTGGCTACATCGTTTGC
AGATACAGGATTGATGTAGAGGGCATGAAGTCAGATGACACAACTGAATTATTTAATAGGTGCCAAGGACACTGCTTAGA
AAGACAAAACTACATTGAAGACCTTCAGAATGGTCCTATCAGAAAGAATTGGAATTCTGGGGTATTCAGGTCAACTGGTT
TTGAAGACTCAGGACACCTCATGAAACTAGTCTATGCCACAAATAAGTCTATTAACAAAGTACCTAGTTATAACCTACAT
CAGACTCAACACCTTGGCATTTCCACACCC

Alignment

ORF - retro_tbel_1984 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.4 %
• Parental protein coverage: 73.13 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LRKSFEKNLTPEECFSPLDL-FNKIREQEEELGLIIDLTYTQRYYKPEDFPETVPYLKIFTAGHQIPNDD
          L.KSFEKNL.PEECFSPLDL.FNKI.EQ.E.L.LI.DL.Y.QRYYK..DFPETV.YLKIFTAGHQ.PNDD
Retrocopy LSKSFEKNLVPEECFSPLDL<FNKIQEQDEVLELITDLNYIQRYYK-QDFPETVHYLKIFTAGHQVPNDD

Parental  TIFKFKCAVNGFLKENKDNNKLIGIHCTHGLNRTGYLICRYLIDVEGMKPDDAIELFNRCRGHCLERQNY
          TIFKFKCAVN.FLKEN..NN.LIGIHC.HGLNRTGY..CRY.IDVEGMK.DD..ELFNRC.GHCLERQNY
Retrocopy TIFKFKCAVNRFLKENTGNNELIGIHCAHGLNRTGYIVCRYRIDVEGMKSDDTTELFNRCQGHCLERQNY

Parental  IEDLQNGPIRKNWNSGASRSTAFEDSGHLMEPVYPTNVSVNKVPRYNLHRTR--GYPTP
          IEDLQNGPIRKNWNSG..RST.FEDSGHLM..VY.TN.S.NKVP.YNLH.T...G..TP
Retrocopy IEDLQNGPIRKNWNSGVFRSTGFEDSGHLMKLVYATNKSINKVPSYNLHQTQHLGISTP

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_1984 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_1984 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 5 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012041	2 retrocopies	retro_chof_2647, retro_chof_932,
Echinops telfairi	ENSETEG00000005304	1 retrocopy	retro_etel_487,
Macropus eugenii	ENSMEUG00000009370	1 retrocopy	retro_meug_1073,
Tupaia belangeri	ENSTBEG00000014600	1 retrocopy	retro_tbel_1984 ,
Tursiops truncatus	ENSTTRG00000015444	5 retrocopies	retro_ttru_1220, retro_ttru_1512, retro_ttru_1627, retro_ttru_1746, retro_ttru_1877,