RetrogeneDB ID: retro_tbel_1374

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_453:64714..65642(-)
• Located in intron of: ENSTBEG00000015442

Retrocopy information

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

Parental gene information

• Parental gene symbol: KANSL2
• Ensembl ID: ENSTBEG00000016536
• Aliases: None
• Description: KAT8 regulatory NSL complex subunit 2 [Source:HGNC Symbol;Acc:26024]

Sequence

>retro_tbel_1374
CATGCCGGTGTCTACACAGCAGAGGAAGTGGCCCTAATTATGCGTGAGAAGCTAATTCGATGACAGTCTTTGTATATAGA
TCAGTTTAAACGACTTCAGCATCTGCTCAAGGAGAAGCAGCGTCGGTACTTACATAATCGCAAAGTGGAACACGAAGCGT
TAGGTAGTCGTCTGCTGACTGGCCCAGAGGGACTTTTGGCTAAAGAACGAGACAATTTCAAGCGATTGAAATGTCTCCGA
CAGTATCGCCAGCTCTATGGAGTAGAAGCCTTATTACACAGACAGCTGAAGGAATGCAGGATGCTGGCCACGGATGGTGC
TGCCCAACAGGCCCACACCACTCGTTCCAGTCAGAGATGCTTGGCCTTCGTGGATGATGTTCATTGTTCCAATCAGTCTC
TTCCCATGACCAGACACTGTCTCATCCATATTTTTCAGAGTACGAATCAGGTTCTCTTCAAATGCTGTCAGGGATCTGAA
GAGGTACCCTGCAACAAGCCCGTTCCTGTAAGCCTCTCTGAGGATCCCTGCTGCCCACTCATTTCCAGTGCCTCCTCAGA
TGTATAAGCCTGAGCAGGCACTGTCTGTGCCAGACGATCTGGAAGCCGGCCCCGTGGATCTGTACTTGAGTGCTGCTGAG
CTTCAGCCCACTGAGAGTTTGCCTCTGGAGTTCAGAGATGACTTGGATGTTGTGGGTGATGGTATGCAGTGTCCTCCGTC
ACCCTTGGTTTTTGATCCTTCACTAACCCTTGACGATCATTCAATCAAAGAAATTGCTGAAGGCCCGGTGGATATCTTGG
GCCAGATGCAGGTGACTGGAGACGGGTGCAGATCCCAGGGATCTTGAAATTCTGAGAAAACCTCTGCCCCACTGCCTCAA
AGTGGACTGGCTACTGCAAATGGCAAGCCAGAACCCTCTTCTATCAGC

Alignment

ORF - retro_tbel_1374 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.82 %
• Parental protein coverage: 79.43 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  HAGVYTAEEVALIMREKLIRLQSLYIDQFKRLQHLLKEKKRRYLHNRKVEHEALGNSLLTGPEGLLAKER
          HAGVYTAEEVALIMREKLIR.QSLYIDQFKRLQHLLKEK.RRYLHNRKVEHEALG..LLTGPEGLLAKER
Retrocopy HAGVYTAEEVALIMREKLIR*QSLYIDQFKRLQHLLKEKQRRYLHNRKVEHEALGSRLLTGPEGLLAKER

Parental  ENLKRLKCLRRYRQRYGVEALLHRQLKERRMLATDGAAQQAHTTRSSQRCL-FVDDVRCSNQSLPMTRHC
          .N.KRLKCLR.YRQ.YGVEALLHRQLKE.RMLATDGAAQQAHTTRSSQRCL.FVDDV.CSNQSLPMTRHC
Retrocopy DNFKRLKCLRQYRQLYGVEALLHRQLKECRMLATDGAAQQAHTTRSSQRCLAFVDDVHCSNQSLPMTRHC

Parental  LTHICQDTNQVLFKCCQGSEEVPCNKPVPVSLSEDPCCPL-HFQ-LPPQMYKPEQVLSVPDDLEAGPMDL
          L.HI.Q.TNQVLFKCCQGSEEVPCNKPVPVSLSEDPCCPL.HFQ..PPQMYKPEQ.LSVPDDLEAGP.DL
Retrocopy LIHIFQSTNQVLFKCCQGSEEVPCNKPVPVSLSEDPCCPL<HFQ<VPPQMYKPEQALSVPDDLEAGPVDL

Parental  YLSAAELQPTESLPLEFSDXXXXXXXXXXXXPSPLLFDPSLTLDDHSIKEIAEGPVDILAIMQMTGDGCR
          YLSAAELQPTESLPLEF.D............PSPL.FDPSLTLDDHSIKEIAEGPVDIL..MQ.TGDGCR
Retrocopy YLSAAELQPTESLPLEFRDDLDVVGDGMQCPPSPLVFDPSLTLDDHSIKEIAEGPVDILGQMQVTGDGCR

Parental  SQGSRNSEKTSAPLPQSGLATANGKPEPSSTS
          SQGS.NSEKTSAPLPQSGLATANGKPEPSS.S
Retrocopy SQGS*NSEKTSAPLPQSGLATANGKPEPSSIS

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_1374 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_1374 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 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000005760	1 retrocopy	retro_cpor_1491,
Dipodomys ordii	ENSDORG00000001180	1 retrocopy	retro_dord_474,
Mus musculus	ENSMUSG00000022992	2 retrocopies	retro_mmus_2944, retro_mmus_3134,
Rattus norvegicus	ENSRNOG00000010904	3 retrocopies	retro_rnor_1071, retro_rnor_2831, retro_rnor_792,
Tupaia belangeri	ENSTBEG00000016536	1 retrocopy	retro_tbel_1374 ,