RetrogeneDB ID: retro_nleu_933

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397276.1:10852740..10853323(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCNG2
• Ensembl ID: ENSNLEG00000008169
• Aliases: None
• Description: None

Sequence

>retro_nleu_933
GATCTAAGAGGTTGAACTAACTTTTTTTGAATCTTCTCCAGAAACTTATTGTGGCTGCCAATATTTTGGACAGATCCTTG
GCTTTTCTGAAGATGAAACCTAAAATTAATCTTTCACTGGGGTCTGTTGTTTATGCTGGTGGCCAGAATATTTGAAAAAG
AATGCAATGTTTTATCTACTCATGAAGTAATCTTGATTCGTCAATGTAAACGTACTGCTTCTTCTGACAGAAAACTGATG
GAAAAATAGTTTCAGAAAAAAATTCAGAACTATGAATTGGAACGTACTGTACCTTAAACTTCTTTTGCTTCTATGAGACT
ATCATATTTCTTTATATTTGAGAAAGGAAAGAAATATTGGGCCTTATAAACTGGAAGCTCAGCTGAAAACTTGCAATTTT
TTGCTAATGTTTTCAAAAGCAAAACCATCTGTATTAGTTTTGTGTCTTCTTAATCTGGAAGTAGAACTGTTGTAATTTAC
TGAATTATTGAAAAATTTCCTGCTTCTTATAAGGCATTCAAAGATTAATGACACCAAATTCTTTTAGTGGAGGGAAGTAG
TTTCTAAATGCCTAGCTGAATAT

Alignment

ORF - retro_nleu_933 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.7 %
• Parental protein coverage: 56.4 %
• Number of stop codons detected: 7
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  DLRSLANFFG-SCTETFVLAVNILDRFLALMKVKPK-HLSCIGVCS-FLLAARIVEEDCNIPSIHDVIRI
          DLR...NFF..........A.NILDR.LA..K.KPK...S..GVC..F.L.ARI.E..CN..S.H.VI.I
Retrocopy DLRG*TNFF*<NLLQKLIVAANILDRSLAFLKMKPK<N*SFTGVCC<FMLVARIFEKECNVLSTHEVILI

Parental  SQCKCTAS-DIKRMEKIISEKL-HYELEATT-ALNFLHLYHTIILCHTSERKEILSLD-KLEAQLKACNC
          .QCK.TAS.D.K.MEK....K...YELE.T...LNF...Y.TII.....ERKEIL.L..KLEAQLK.CN.
Retrocopy RQCKRTASSDRKLMEK*FQKKIQNYELERTV<TLNFFCFYETIIFLYI*ERKEILGLI<KLEAQLKTCNF

Parental  RLVFSKAKPSVLALCLLNLEVETLKSVELLEILLLVKKHSKINDTEFFYWRELVSKCLAEY
          .L.FSKAKPSVL.LCLLNLEVE.L...ELL...LL...HSKINDT.FF.WRE.VSKCLAEY
Retrocopy LLMFSKAKPSVLVLCLLNLEVELL*FTELLKNFLLLIRHSKINDTKFF*WREVVSKCLAEY

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Nomascus leucogenys was not studied using RNA-Seq expression data.

ChIP-Seq

Nomascus leucogenys was not studied using ChIP-Seq data.

EST

Nomascus leucogenys was not studied using EST data.

TSS

Nomascus leucogenys was not studied using FANTOM5 data.

Lab

retro_nleu_933 was not experimentally validated.

Homology

Retrocopy orthology:

Nomascus leucogenys 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,