RetrogeneDB ID: retro_tbel_3110

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_130627:7228..8129(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ABCG2
• Ensembl ID: ENSTBEG00000004706
• Aliases: None
• Description: ATP-binding cassette, sub-family G (WHITE), member 2 [Source:HGNC Symbol;Acc:74]

Sequence

>retro_tbel_3110
AAGGAGACTGAAGAACCTGTCAAGGGATATAAGTCACTCATATAAAAATCAGCAGAATTTTACATCGATTCCTCCTTCTA
CAGAGAAACCAAGGCTAAATTAGAACAATTATCAGAGGGCCAGAAAAAGAAGAGTGTAGCTTTTAGGAAGATCACCTGTG
CCACCTCCTTTTGTCATAAACTCAAGTAGATTTCCAGGCATTCATTCATAAACTTACTGGGTAACCTCCCGGCCTCCATT
GCTCAGATAATTATCACAATCATACTGGGGCTGGATATAGGTTCCATCTTCTTTGGTTTAAAAAATCATTGTACTGGAAT
CCAGAATAGAGCTGGGGTGCTCTTCTTTCTGACCACCAACCAGTGTTTCAGCAGCTTGCTGGCTGTGGTTTTTTTGTGGT
CCAGAAGAAACTCTTTATACATGAATATATCAGTGGCTACTATAGAGTGGCATCTTATTTCTTTGCAAAACTGTTATCTG
ATATGCTTCTCATAAGGATATTATCAAGTATTATATTTACCTGTATAATATTCTTCATGGTAGGATCGAAACCCACAGTG
GAGGCCTTCTTCATCATGATGTTAGCCTTTATGATGGGGGCTTACTTGGCCAGTTCCATGACGCTGGCCATAGCAGCAGG
TCAGAGTGTGGTGTCCTAGCAACACTTCTCATGACCACCTCTTTCGTGTTCATGATGATTTTTTCATGTCTGTTGGTCAG
TCTCAAAACCATTGCAGCTTAGTTGTCATGGCTGCAGTACATCAACATCCCTTGATACGGTTATACAGCTTTGAAGCATA
ATGAATTTTGGAGACAAGACTTCTGTCCAGGTTTGAATATAACAGCAAAGAGTACTTGTAGTGGCTTTGCAGCACGTATT
GGCAAAAACTGTCTGACAAGC

Alignment

ORF - retro_tbel_3110 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.25 %
• Parental protein coverage: 57.55 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KETKEPAMGDKPLIEKLAEFYVNSSFYSETKAELDQLSQGQKKKSVAFKEIAYATSFCHQLKWITRRSFK
          KET.EP..G.K.LI.K.AEFY..SSFY.ETKA.L.QLS.GQKKKSVAF..I..ATSFCH.LK.I.R.SF.
Retrocopy KETEEPVKGYKSLI*KSAEFYIDSSFYRETKAKLEQLSEGQKKKSVAFRKITCATSFCHKLK*ISRHSFI

Parental  NLLGNPQASIAQIIVTVILGLVIGAIFFGLKHDRTGIQNRAGVLFFLTTNQCFSSVSAV-ELFVVEKKLF
          NLLGN..ASIAQII.T.ILGL.IG.IFFGLK...TGIQNRAGVLFFLTTNQCFSS..AV...FVV.KKLF
Retrocopy NLLGNLPASIAQIIITIILGLDIGSIFFGLKNHCTGIQNRAGVLFFLTTNQCFSSLLAV<GFFVVQKKLF

Parental  IHEYISGYYRVSSYFFGKLLSDLLPMRMLPSIIFTCIIYFMLGLKPTVEAFFIMMFSLMMVAYSASSMAL
          IHEYISGYYRV.SYFF.KLLSD.L..R.L.SIIFTCII.FM.G.KPTVEAFFIMM...MM.AY.ASSM.L
Retrocopy IHEYISGYYRVASYFFAKLLSDMLLIRILSSIIFTCIIFFMVGSKPTVEAFFIMMLAFMMGAYLASSMTL

Parental  AIAAGQSVVS-VATLLMTISFVFMMIFSGLLVNLKTIAAWLSWLQYFSIPRYGYTALQHNEFLGQDFCPG
          AIAAGQSVVS..ATLLMT.SFVFMMIFS.LLV.LKTIAA.LSWLQY..IP.YGYTAL.HNEF..QDFCPG
Retrocopy AIAAGQSVVS<LATLLMTTSFVFMMIFSCLLVSLKTIAA*LSWLQYINIP*YGYTALKHNEFWRQDFCPG

Parental  LNVTANSTCSDFVICSGEDYLTS
          LN.TA.STCS.F....G...LTS
Retrocopy LNITAKSTCSGFAARIGKNCLTS

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_3110 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_3110 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000011333	1 retrocopy	retro_eeur_320,
Tupaia belangeri	ENSTBEG00000004706	1 retrocopy	retro_tbel_3110 ,
Tursiops truncatus	ENSTTRG00000015227	1 retrocopy	retro_ttru_313,