RetrogeneDB ID: retro_tbel_2191

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_104166:3575..4243(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BLZF1
• Ensembl ID: ENSTBEG00000003379
• Aliases: None
• Description: basic leucine zipper nuclear factor 1 [Source:HGNC Symbol;Acc:1065]

Sequence

>retro_tbel_2191
TCAACCCCAATTGGAGAAGCAGGAGATGGAATGAAAACCGAGGAGCCACCTCCATCTGTTGAGGTCATGCCTGAAGTCTA
GTCCAATAAACACCACATCCTTCAGAGTCCACAGAAGAAAGTAGTCCCACCCAAGAGTCCAGGAGTTCTTCAGCTGGAGA
AGATTCTTGCTGAAAAAGCAGTGGAGGTTGAAACTGTGTGAACATTAGTTCCCAAAACTGATGTAATTCATGATAAAAGT
GCAAAGGTTAAATCTCTGTGACATCATAAAGAATTGTCTGGTCAGCCAGAGGGAGGTATAGAACCTAGGAAGGAACTCTC
AGAGGTAAAGGTAATATTGGAAAAGCTCAAGAATTCGGAAAGGAGGCTACTGCAGGACAAAGAAGGTCTCTCAAACCAGC
TCCAAATACAGAGAGAAGTACATTGGGAGCTAAAGAAGTTGCTGGTGTTTCTGTTGGGATGCTCTTCAGTATCACTTTGA
CCATCTAGCCCCGAGAGAAAAACCAGCTTATTTTAGAAAATGAAGCCCTCAGTCAAAACACTGCTCAGCTTTCAGAACTG
TTGGAACATGTGTCAATACAGTGTGATGTATGGGGAAGTAAATTCCTCGCAAACAAGGTCATGGCAGATGAGTTAACCAA
CTCCAGAGCTGCACTACAACACCACAAC

Alignment

ORF - retro_tbel_2191 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.83 %
• Parental protein coverage: 58.21 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  STPIRGAGDGMETEEPPQSVEVTSGVQSIKHHILQSPRKKAVPSESPGVLQLGKILAEKAVEVEAVRILV
          STPI..AGDGM.TEEPP.SVEV...V.S.KHHILQSP.KK.VP..SPGVLQL.KILAEKAVEVE.V..LV
Retrocopy STPIGEAGDGMKTEEPPPSVEVMPEV*SNKHHILQSPQKKVVPPKSPGVLQLEKILAEKAVEVETV*TLV

Parental  PKAAIIHDLPNKNTKVKSLGHHKGELFGQPEGAIEPRKELSELKVILEKLKNSERRLLQDKEGLSNQLRV
          PK...IHD...K..KVKSL.HHK.EL.GQPEG.IEPRKELSE.KVILEKLKNSERRLLQDKEGLSNQL..
Retrocopy PKTDVIHD---KSAKVKSL*HHK-ELSGQPEGGIEPRKELSEVKVILEKLKNSERRLLQDKEGLSNQLQI

Parental  QTEVNRELKKLLV-ASVG-DDLQYHFERLA-REKNQLILENEALSRNTAQLSEQLERMSIQCDVWRSKFL
          Q.EV..ELKKLLV..SVG.D.LQYHF..LA.REKNQLILENEALS.NTAQLSE.LE..SIQCDVW.SKFL
Retrocopy QREVHWELKKLLV<VSVG<DALQYHFDHLA>REKNQLILENEALSQNTAQLSELLEHVSIQCDVWGSKFL

Parental  ASRVMADELTNSRAALQRQN
          A..VMADELTNSRAALQ..N
Retrocopy ANKVMADELTNSRAALQHHN

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_2191 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2191 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000011473	1 retrocopy	retro_amel_627,
Choloepus hoffmanni	ENSCHOG00000008235	1 retrocopy	retro_chof_1515,
Echinops telfairi	ENSETEG00000008147	1 retrocopy	retro_etel_53,
Tupaia belangeri	ENSTBEG00000003379	1 retrocopy	retro_tbel_2191 ,