RetrogeneDB ID: retro_tbel_38

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_77184:3416..4301(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTBEG00000009039
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: CCNG2
• Ensembl ID: ENSTBEG00000007671
• Aliases: None
• Description: cyclin G2 [Source:HGNC Symbol;Acc:1593]

Sequence

>retro_tbel_38
ATGATAGAGGTTCTGACAACTGACTCTCAGAAACTGCTACACCAGCTGAATGTCCTGTTGGAACAGGAGTCTAGATGTCA
GCCAACGGTCTGTGGCTGGAGACTAATTGAGTCTGCACATGATAATGGCCTCGGAATGACTGCAAGGCTAAGGGACTTTG
AAGTAAAAGATCTCCTTAGTCTAACTCAGTTCTTTGGCTTTGACACGCAGACATTTTCTCTAGCTGTGAATTTACTGGAC
AGATTCCTGTCTAAAATGAAGGTACAACCCAAGCACCTTGGTTGTGTTGGACTGAGTTGCTTCTATTTGGCCATAAAATC
AGTAAAAGATGAGAGGAATGTCCCACTGGCAACTGACTTGATTCGAATTAGTCAATATAGGTTCACGGTTTCAGATTTGA
TGAGAATGGAGAAGATTGTATTAGAGAAGGGTTATTGGAAAGTCAAAGCTACTACTGCCTTTCAGTTTCTGCAACTCTAT
TATTCACTCATTCAAGAGAACTTGCCATTTGAAAGGAGAAACAGCCTTAATTTTGAAAGACTAGAAGCTCAACTTAAGGC
ATGCCACTGTAGGATCATGTTTTCTAAAGCAAAGTCTTCTGTGTTGGCATTGTCTATTATTGCATTGGAGATCCAAGCAC
AAAAGTGTGTAGAATTAACAGAAGGAATAGACTGTCTTCAAAAACATTCCAAGATAAATGGCAGAGATTTGACCTTCTGG
CAAGAACTTGTATCCAAGTGTTTAACTGAATATTCATCAAACAAGTGTTCCAAACCAAATGTTCAGAAGTTGAAATGGAT
AGTTTCTGGTCGTACAGCATGGCAACTGAAGCATAGTCACTACAAAATAACTCACCTTCCAACAATTCCTGAAATGGTTC
CTTAA

Alignment

ORF - retro_tbel_38 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.86 %
• Parental protein coverage: 92.08 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LLGLLNLHLEQEQKFQPREKGLSLIEATPENDVTLCPRLRNAKVEDLRSLTNFFGSCTETFVLAVNILDR
          LL..LN..LEQE...QP...G..LIE....N......RLR...V.DL.SLT.FFG..T.TF.LAVN.LDR
Retrocopy LLHQLNVLLEQESRCQPTVCGWRLIESAHDNGLGMTARLRDFEVKDLLSLTQFFGFDTQTFSLAVNLLDR

Parental  FLALMKVKPKHLSCIGVCCFLLAARIVEEECNIPSTYDVIRISQCKCTASDIKRMEKIISEKLHYELEAT
          FL..MKV.PKHL.C.G..CF.LA...V..E.N.P...D.IRISQ...T.SD..RMEKI..EK......AT
Retrocopy FLSKMKVQPKHLGCVGLSCFYLAIKSVKDERNVPLATDLIRISQYRFTVSDLMRMEKIVLEKGYWKVKAT

Parental  TALNFLHLYHTIMLCHTS-ERKDILSLDKLEAQLKACNCRLTFSKAKPSVLALCLLNLEVETLKSVELLE
          TA..FL.LY..........ER...L....LEAQLKAC.CR..FSKAK.SVLAL....LE....K.VEL.E
Retrocopy TAFQFLQLYYSLIQENLPFERRNSLNFERLEAQLKACHCRIMFSKAKSSVLALSIIALEIQAQKCVELTE

Parental  ILLLVKKHSKINDTEFFYWRELVSTCLAEYSSPECCKPDLKKLVWIVSRRTAQNLHNSYYSVPELPTIPE
          ......KHSKIN......W.ELVS.CL.EYSS..C.KP...KL.WIVS.RTA..L..S.Y....LPTIPE
Retrocopy GIDCLQKHSKINGRDLTFWQELVSKCLTEYSSNKCSKPNVQKLKWIVSGRTAWQLKHSHYKITHLPTIPE

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_38 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_38 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 13 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000013793	1 retrocopy	retro_amel_960,
Dasypus novemcinctus	ENSDNOG00000005210	1 retrocopy	retro_dnov_2498,
Felis catus	ENSFCAG00000026008	1 retrocopy	retro_fcat_1062,
Macropus eugenii	ENSMEUG00000008707	1 retrocopy	retro_meug_1962,
Macaca mulatta	ENSMMUG00000000914	1 retrocopy	retro_mmul_879,
Monodelphis domestica	ENSMODG00000011779	1 retrocopy	retro_mdom_358,
Nomascus leucogenys	ENSNLEG00000008169	1 retrocopy	retro_nleu_933,
Pongo abelii	ENSPPYG00000014867	1 retrocopy	retro_pabe_942,
Pan troglodytes	ENSPTRG00000016196	1 retrocopy	retro_ptro_773,
Sus scrofa	ENSSSCG00000008988	1 retrocopy	retro_sscr_813,
Ictidomys tridecemlineatus	ENSSTOG00000027922	1 retrocopy	retro_itri_1112,
Tupaia belangeri	ENSTBEG00000007671	2 retrocopies	retro_tbel_2258, retro_tbel_38 ,
Tursiops truncatus	ENSTTRG00000014837	1 retrocopy	retro_ttru_491,