RetrogeneDB ID: retro_tbel_4682

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_97684:38739..39015(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GLIPR2
• Ensembl ID: ENSTBEG00000009276
• Aliases: None
• Description: GLI pathogenesis-related 2 [Source:HGNC Symbol;Acc:18007]

Sequence

>retro_tbel_4682
CAGTGCAGTGATAACCTGGCCTGGGCATCCTATAATCAGACAGGAAAGGAGCTGGCTGATAGAGGGTACAGTGAAATCAA
GAACTACAACTTCCAGCAACCTGGCTTCACCTTGGGGATTGGACACTTCATGGCCATGGTCTGGAAGAATACAAATAAGA
TGGGAATGGGAAAGGCATCTGCAAGTGACAGGTCCTCCTTGGTGGTGGCTAGATACTTCCCATCAGGGAATGTTGTCAAT
CAGATCTTCTTTGAAGAAAATGTCCTACTTCCAAAG

Alignment

ORF - retro_tbel_4682 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.0 %
• Parental protein coverage: 59.06 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QGEENLA-ASCHQ--KEVADRWYSEIKNYNFQQPGFTSGTGHFTAMVSKNTKKMGMGKACASDGSS-EVA
          Q...NLA.AS..Q..KE.ADR.YSEIKNYNFQQPGFT.G.GHF.AMV.KNT.KMGMGKA.ASD.SS..VA
Retrocopy QCSDNLAWASYNQTGKELADRGYSEIKNYNFQQPGFTLGIGHFMAMVWKNTNKMGMGKASASDRSSLVVA

Parental  RYSPAGNVVNQGFFEENVLPPK
          RY.P.GNVVNQ.FFEENVL.PK
Retrocopy RYFPSGNVVNQIFFEENVLLPK

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_4682 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_4682 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 9 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000030686	1 retrocopy	retro_cfam_428,
Dasypus novemcinctus	ENSDNOG00000008950	1 retrocopy	retro_dnov_2040,
Dipodomys ordii	ENSDORG00000012831	1 retrocopy	retro_dord_342,
Felis catus	ENSFCAG00000012762	2 retrocopies	retro_fcat_115, retro_fcat_1587,
Microcebus murinus	ENSMICG00000017673	1 retrocopy	retro_mmur_1525,
Myotis lucifugus	ENSMLUG00000011791	2 retrocopies	retro_mluc_1145, retro_mluc_475,
Mus musculus	ENSMUSG00000028480	1 retrocopy	retro_mmus_2458,
Rattus norvegicus	ENSRNOG00000014838	1 retrocopy	retro_rnor_2217,
Tupaia belangeri	ENSTBEG00000009276	2 retrocopies	retro_tbel_1646, retro_tbel_4682 ,