RetrogeneDB ID: retro_tbel_3660

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_148048:127976..128635(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: WBP1L
• Ensembl ID: ENSTBEG00000005555
• Aliases: None
• Description: WW domain binding protein 1-like [Source:HGNC Symbol;Acc:23510]

Sequence

>retro_tbel_3660
GATAAGGAAGCCTGTGTGGATACAAACAATCGAAACTACATCTGTGGCACAGGACACTGCTATGGAGAGTTTCAGTACTA
CAACTACTACTATGAACTCTGGTGGTTCTGGCTGGTATGGACAATCATCATCTCATCCTGAGCTGGTGCTACATCTGCCA
CCACTGCGGAGCCAAGCAACGCCTTCAGGCCCAGCAGTGGCAGCATGAGATCAACCTGATTGCCTACTGGGAAGCCCACA
ATTACTCATAACTGCCATTTTATTTCAAGTTTTTGCCAAACTATTTACTGCCTCCTCATGAGGAAGTGGTGAACCGACCT
CCAACTCCTCCTCCACCATATAGTGCCTTCCAGCTCTAGCACCAGCCACTGCCTCCACATAGTGGCCCTGCAGGTGGCAG
CTTCTCAGGTGCCAATCCCACCAGGGGCTCCCAAGAGATACGGATTAGCCCCTTGTCTGGGTCCGGCAGAAATGGCACAA
GACCCCCTAGTATTGCTGACCCTGAGCCCTGCTACATGCCAGCCAATCAACTAGCCACCAAAGCCCCTATAATGTATCTC
AGTGACTCTGTGACTGGCCTGGGAGAGATGGACACTGAGTTTTTCCTGAACAAGGATTCCAAGTGTAAGGAGGAGCTGCA
GAAAGATTATATCTCTAAG

Alignment

ORF - retro_tbel_3660 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.4 %
• Parental protein coverage: 65.36 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  DKEACVGTNNQSYICDTGHCCGQSQCCNYYYELWWFWLVWT-II-IILSCCCVCHHRRAKHRLQAQQRQH
          DKEACV.TNN..YIC.TGHC.G..Q..NYYYELWWFWLVWT.II..ILS.C..CHH..AK.RLQAQQ.QH
Retrocopy DKEACVDTNNRNYICGTGHCYGEFQYYNYYYELWWFWLVWTIII<LILSWCYICHHCGAKQRLQAQQWQH

Parental  EINLIAYREAHNYSALPFYFRFLPNYLLPPYEEVVNRPPTPPPPYSAFQLQQQPLPPQCGPAGGSPPGAD
          EINLIAY.EAHNYS.LPFYF.FLPNYLLPP.EEVVNRPPTPPPPYSAFQL..QPLPP..GPAGGS..GA.
Retrocopy EINLIAYWEAHNYS*LPFYFKFLPNYLLPPHEEVVNRPPTPPPPYSAFQL*HQPLPPHSGPAGGSFSGAN

Parental  P-RASQGAQSSPLSGPSRSSTRPPSIADPEPSDVPANRAASKAPGMEPTGSVAGLGELDPR-FLDKDSEC
          P.R.SQ....SPLSG..R..TRPPSIADPEP...PAN..A.KAP.M....SV.GLGE.D...FL.KDS.C
Retrocopy PTRGSQEIRISPLSGSGRNGTRPPSIADPEPCYMPANQLATKAPIMYLSDSVTGLGEMDTEFFLNKDSKC

Parental  KEELLKDYSSE
          KEEL.KDY.S.
Retrocopy KEELQKDYISK

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_3660 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_3660 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 8 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000014336	1 retrocopy	retro_btau_855,
Choloepus hoffmanni	ENSCHOG00000007532	1 retrocopy	retro_chof_1174,
Callithrix jacchus	ENSCJAG00000018079	1 retrocopy	retro_cjac_2235,
Homo sapiens	ENSG00000166272	1 retrocopy	retro_hsap_3774,
Macaca mulatta	ENSMMUG00000017596	1 retrocopy	retro_mmul_1640,
Pongo abelii	ENSPPYG00000002610	1 retrocopy	retro_pabe_3084,
Tupaia belangeri	ENSTBEG00000005555	1 retrocopy	retro_tbel_3660 ,
Tursiops truncatus	ENSTTRG00000012618	2 retrocopies	retro_ttru_138, retro_ttru_437,