RetrogeneDB ID: retro_tbel_2135

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_101679:6450..7320(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CEP57
• Ensembl ID: ENSTBEG00000003141
• Aliases: None
• Description: centrosomal protein 57kDa [Source:HGNC Symbol;Acc:30794]

Sequence

>retro_tbel_2135
CAAGAGTTGGAAGCAAAACTCCATGAAGAAGAACAGGAAAGGAAACGCATGCAAGCTAAGGCAGCTGAGTTACAGACTGG
TCTAGAAGCAAATAGACTTATCTTGGAAGATAAGGCGACTTAATGTGTTCCCAGTGCAAAAAGAATTAAAAAAAAGAAGT
CAAAACCACCAGAAAAGAAAGGCTCTAGAAACTATTTTGGCGGACAGCCACATTATAGATAATGCTTGGGTGATATGCCG
TTTGTAGCTGGAAAGTCCACCAGTCCTAGCCATGCCGTGGTAGCCAATGTTCAGCATGTCTTGCATCTAATGAAGCAGTG
TAGTAAAGCATTGTGCAATGATCGAGTAGTCAACAGTGTTCCTCTGGCAAAGCAAGTACCTTCACAAGGTGGTAAAAGTA
AGAAGTCAGTAATGCCTCCCTCCTCCAACAGCATTAATGAAGAGCTGTCGGAAGTCTTACAGACTTTACAGGATGAATTT
GGGCAAATGAGCTTTGATCACCAGCAGCTTGCAAAACTTATTCAAGAGTGTCCAACCGCTGAACTGAAAAACAATTTAGA
GTGCGAACTGGAGGCACTGGTGGGAAGGATGGAGGTAAAAGCCAACCAAATAACTAAAGTTCGAAAATACCAAGCCCAGC
TGGAGAAACAGAAGCTAGAGAAACAGAAGAAGGAATTAAAACCTACCAAAAAGACTCTTGATGAAGAAGGAAACAGTAGC
AGCCGTTCTTCTGGAATCACAAGGACCACAAATCAGAAGAGTTTTGCCAAACTGAGACCTGGGGAAAAAAGCAGGAAAAA
TCTCCAGTTATTGAAGGACATGCAAATCATACAGAATTCATTACAAAGCAGTAATTTGAGTTGGGATTAC

Alignment

ORF - retro_tbel_2135 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.31 %
• Parental protein coverage: 57.88 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QELEAKLHEEEQERKRMQAKAAELQTGLEANRLILEDKATSCVPSAKRIKKKKSKPPEKKGSRNYFGGQP
          QELEAKLHEEEQERKRMQAKAAELQTGLEANRLILEDKAT.CVPSAKRI............SRNYFGGQP
Retrocopy QELEAKLHEEEQERKRMQAKAAELQTGLEANRLILEDKAT*CVPSAKRIXXXXXXXXXXXXSRNYFGGQP

Parental  HYRLCLGDMPFVAGKSTSPSHAVVANVQHVLHLMKQHSKALCNDRVVNSVPLAKQVPSQGGKSKKSVTPP
          HYR.CLGDMPFVAGKSTSPSHAVVANVQHVLHLMKQ.SKALCNDRVVNSVPLAKQVPSQGGKSKKSV.PP
Retrocopy HYR*CLGDMPFVAGKSTSPSHAVVANVQHVLHLMKQCSKALCNDRVVNSVPLAKQVPSQGGKSKKSVMPP

Parental  SSSSINEELSEVLQTLQDEFGQMSFDHQQLAKLIQESPTAELKDNLECELEALVGRMEAKANQITKVRKY
          SS.SINEELSEVLQTLQDEFGQMSFDHQQLAKLIQE.PTAELK.NLECELEALVGRME.KANQITKVRKY
Retrocopy SSNSINEELSEVLQTLQDEFGQMSFDHQQLAKLIQECPTAELKNNLECELEALVGRMEVKANQITKVRKY

Parental  QAQLEKQKLEKQKKELKPTKKTLDEEGNSSSRSSGITRTTNQKSFAKLRPGEKSRKNLQLLKDMQIIQNS
          QA...........KELKPTKKTLDEEGNSSSRSSGITRTTNQKSFAKLRPGEKSRKNLQLLKDMQIIQNS
Retrocopy QAXXXXXXXXXXXKELKPTKKTLDEEGNSSSRSSGITRTTNQKSFAKLRPGEKSRKNLQLLKDMQIIQNS

Parental  LQSSNLSWDY
          LQSSNLSWDY
Retrocopy LQSSNLSWDY

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_2135 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2135 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000000996	1 retrocopy	retro_etel_1557,
Homo sapiens	ENSG00000166037	1 retrocopy	retro_hsap_474,
Macaca mulatta	ENSMMUG00000014796	1 retrocopy	retro_mmul_575,
Nomascus leucogenys	ENSNLEG00000007130	1 retrocopy	retro_nleu_888,
Tupaia belangeri	ENSTBEG00000003141	1 retrocopy	retro_tbel_2135 ,