RetrogeneDB ID: retro_tbel_48

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_142851:960..1878(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTBEG00000011422
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: WDR61
• Ensembl ID: ENSTBEG00000009390
• Aliases: None
• Description: WD repeat domain 61 [Source:HGNC Symbol;Acc:30300]

Sequence

>retro_tbel_48
ATGACCAATCGGTACAGTATTCTCTTCAAACAAGAACAAGCCCACAACAATGTCATCTGGTCTGTCGCCTGGGGGACAAA
CAAGAAGGAAAACTCTGAGACAGTGGTCATGGGCTCCCTGGACGATCTGGTGAAGGTCTGGAAATGGCATGACGAGAGGC
TGGACCTGCAGTGGAGTCTGGAGGGACATCAGCTGGGGGTGGTGTCTGTGGACATCAGCCACACCCTGCCCATTGCTGCA
TCCAGTTCTCTCGATGCTCACATCCGGCTCTGGGACTTGGAAAATGGCAAACAGATCAAGTCTATAGACACAGGACCTGT
GGATGCCTGGACTTTGGCCTTTTCTCCTGATTCCCAATATCTGGCCACAGGAACACATGAGGGGAAGGTGAACATTTTTG
GTGTGGAAAGTGGAAAAAAAGAATATTCTCTGGACATGAGAGGAAAGTTCATCCTCAGCATTGCATATAGTCCTGATGGG
AAATATCTGGCCAGTGGCACCACAGACAGAATCATCAATATTTTTGATATTGCAACTGGAAAACTTCTGCACACGCTGAA
AGGTCATGCCATGCCCATTTGCTCCCTGACCTTCTCCCCAGACTCTCAGTTCCAGGTCATTGCTTCAGATGATAGTTACA
TCAAGATCTGTGATGTCCAACACGCCAACCTGGCTGGCACGCTGAGTGGCCATGCCTCCTGGGTGCTGAATGTCGCCTTC
TGCCCTGATGACATGCACTTTGTTTCCAGTTCGTCTGACGAGAGTGTACAAGTTTGGGGTGTTGGAACGAGGACTTGTGT
TCATACCTTCTCTGATCACCAGGATCAGGTCTGGGGAGTAAAATACACTAGAAATGGTTCAAAAATTGTGTCTGTTGGAG
ATGACCAGGAAATTCACATCTATGATTGTCCGGTTTAG

Alignment

ORF - retro_tbel_48 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.48 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MTNQYSILFKQEQAHDDAIWSVAWGTNKKENSETVVTGSLDDLVKVWKWCDERLDLQWSLEGHQLGVVSV
          MTN.YSILFKQEQAH...IWSVAWGTNKKENSETVV.GSLDDLVKVWKW.DERLDLQWSLEGHQLGVVSV
Retrocopy MTNRYSILFKQEQAHNNVIWSVAWGTNKKENSETVVMGSLDDLVKVWKWHDERLDLQWSLEGHQLGVVSV

Parental  DISHTLPIAASSSLDAHIRLWDLENGKQIKSIDAGPVDAWTLAFSPDSQYLATGTHVGKVNIFGVESGKK
          DISHTLPIAASSSLDAHIRLWDLENGKQIKSID.GPVDAWTLAFSPDSQYLATGTH.GKVNIFGVESGKK
Retrocopy DISHTLPIAASSSLDAHIRLWDLENGKQIKSIDTGPVDAWTLAFSPDSQYLATGTHEGKVNIFGVESGKK

Parental  EYSLDTRGKFILSIAYSPDGKYLASGAIDGIINIFDIATGKLLHTLEGHAMPIRSLTFSPDSQLLVTASD
          EYSLD.RGKFILSIAYSPDGKYLASG..D.IINIFDIATGKLLHTL.GHAMPI.SLTFSPDSQ..V.ASD
Retrocopy EYSLDMRGKFILSIAYSPDGKYLASGTTDRIINIFDIATGKLLHTLKGHAMPICSLTFSPDSQFQVIASD

Parental  DGYIKIYDVQHANLAGTLSGHASWVLNVAFCPDDTHFVSSSSDKSVKVWDVGTRTCVHTFFDHQDQVWGV
          D.YIKI.DVQHANLAGTLSGHASWVLNVAFCPDD.HFVSSSSD.SV.VW.VGTRTCVHTF.DHQDQVWGV
Retrocopy DSYIKICDVQHANLAGTLSGHASWVLNVAFCPDDMHFVSSSSDESVQVWGVGTRTCVHTFSDHQDQVWGV

Parental  KYNGNGSKIVSVGDDQEIHIYDCPV
          KY..NGSKIVSVGDDQEIHIYDCPV
Retrocopy KYTRNGSKIVSVGDDQEIHIYDCPV

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_48 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_48 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 7 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000015944	1 retrocopy	retro_btau_702,
Canis familiaris	ENSCAFG00000014230	3 retrocopies	retro_cfam_1378, retro_cfam_1422, retro_cfam_910,
Echinops telfairi	ENSETEG00000004321	1 retrocopy	retro_etel_1046,
Macropus eugenii	ENSMEUG00000015991	1 retrocopy	retro_meug_744,
Oryctolagus cuniculus	ENSOCUG00000009040	1 retrocopy	retro_ocun_1570,
Ictidomys tridecemlineatus	ENSSTOG00000007784	1 retrocopy	retro_itri_843,
Tupaia belangeri	ENSTBEG00000009390	1 retrocopy	retro_tbel_48 ,