RetrogeneDB ID: retro_tbel_637

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_2621:100318..100765(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CDK7
• Ensembl ID: ENSTBEG00000012193
• Aliases: None
• Description: cyclin-dependent kinase 7 [Source:HGNC Symbol;Acc:1778]

Sequence

>retro_tbel_637
AGCTCTTCTTTTGTAAACTCCAATAGTTCTTATACACATCAGGTTGTAACCAGGTGGTATCAAGCCTCTGAGTTACTGTT
AGAAGCTAGGATGTATGGTGTGGGTGTGGACATGTGGGCTGTTGCCTGTATATTAGCAGAGCTGCTTCTAAGGGTTCCTT
TTTTGCCAGGAGATTTGGACCTTGATCAATTAATAAGAATATTTGAAACTTTGGACACACCAACTGAGGAACAGTGGCCT
GACATGTGTAGTCTTCCAGATTATGTGACATTTAAGAGTTTTCCTGGAATCCCATTGCAACACATCTTCATTGCAGCTGG
AGACGACTTGCTAGATCTCATACAAGGCTTATTCTTACATAATCCGTGTACCCGAATTACGGCCACACAGGCATTAAAAA
CAAAATATTTTAGTAACCGGCCAGGACCAACACCTGGATGTCAGCTG

Alignment

ORF - retro_tbel_637 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.26 %
• Parental protein coverage: 56.23 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AKSFGSPNRAYTHQVVTRWYRAPELLFGARMYGVGVDMWAVGCILAELLLRVPFLPGDSDLDQLTRIFET
          ..SF...N..YTHQVVTRWY.A.ELL..ARMYGVGVDMWAV.CILAELLLRVPFLPGD.DLDQL.RIFET
Retrocopy SSSFVNSNSSYTHQVVTRWYQASELLLEARMYGVGVDMWAVACILAELLLRVPFLPGDLDLDQLIRIFET

Parental  LGTPTEEQWPDMCSLPDYVTFKSFPGIPLQHIFIAAGDDLLDLIQGLFLFNPCTRITATQALKTKYFSNR
          L.TPTEEQWPDMCSLPDYVTFKSFPGIPLQHIFIAAGDDLLDLIQGLFL.NPCTRITATQALKTKYFSNR
Retrocopy LDTPTEEQWPDMCSLPDYVTFKSFPGIPLQHIFIAAGDDLLDLIQGLFLHNPCTRITATQALKTKYFSNR

Parental  PGPTPGCQL
          PGPTPGCQL
Retrocopy PGPTPGCQL

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_637 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_637 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 8 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000134058	1 retrocopy	retro_hsap_2335,
Gorilla gorilla	ENSGGOG00000013349	1 retrocopy	retro_ggor_1772,
Mus musculus	ENSMUSG00000069089	1 retrocopy	retro_mmus_383,
Otolemur garnettii	ENSOGAG00000010748	1 retrocopy	retro_ogar_986,
Procavia capensis	ENSPCAG00000002566	1 retrocopy	retro_pcap_318,
Pongo abelii	ENSPPYG00000015525	1 retrocopy	retro_pabe_2114,
Pan troglodytes	ENSPTRG00000016946	1 retrocopy	retro_ptro_1707,
Tupaia belangeri	ENSTBEG00000012193	2 retrocopies	retro_tbel_587, retro_tbel_637 ,