RetrogeneDB ID: retro_nleu_1691

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397304.1:14704467..14705126(-)
• Located in intron of: ENSNLEG00000003618

Retrocopy information

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

Parental gene information

• Parental gene symbol: RBM22
• Ensembl ID: ENSNLEG00000010397
• Aliases: None
• Description: None

Sequence

>retro_nleu_1691
CAATCAGAATATTATGGAATCAATGATCCAGAAACAGATAAGCATCTAAAGTGGGCTTCAATCACGCCCCATCTGGACCC
ATCAGAGGACAAGGTTATCCTCCCTATATGTTGGTAGTCTGGGTAATACCATTTCTGAGACAGATCTGAGACATCATCAC
TACCAGTTTGGAGAGATGCAGATGATTACTGTTGTTGAGAGAGAGCAGTGTGCTTTCATCCAGGTTTCCACAGGGCAGGC
TGCAGAAGCGGCTGCTGAGAAGTCCTTTGATAAGTTGATTGTCAATGGCTGTAGACTCAACATAAAATGGGGAAGATCCC
AAGCATCCAGAGGAAAAGAAAAAGAGAAGAACAGATCACAGACTCTGGGATCCAGCTACAGACTATTCCAGCACTGCCAT
GAGCTCTTCCTCCTCCTACAGCAGCAGAGGATGCATCTGCCAACTACTTCAACCTGCCTCAACATGATCCTCTAGCTGTG
GTGAACACTGCCCAACCACCAGCCCCTAGTCTTCCACACCCCCAACCCCAGGATTTAGGCCACACATAATCACCTCAATG
GGACCACCTCTTCCTTTCATAACGACTCCAGGATTAATCCACTATCTTTCTCATGACCCTCAGAGGATGGGAGCTCATGC
CAGAAAACATAGGAAACCC

Alignment

ORF - retro_nleu_1691 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.33 %
• Parental protein coverage: 52.86 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  KDRYYGINDPVADKLLKRASTMPRLDPPEDKTI-TTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQ
          ...YYGINDP..DK.LK.AS..P.LD.P........LYVG.LG.TI.ETDLR.H.YQFGE...ITVV.R.
Retrocopy QSEYYGINDPETDKHLKWASITPHLD-PSEDKV>SSLYVGSLGNTISETDLRHHHYQFGEMQMITVVERE

Parental  QCAFIQFATRQAAEVAAEKSFNKLIVNGRRLNVKWGRSQAARGKEKEKDGT-TDSGIKLEPVPGLPGALP
          QCAFIQ..T.QAAE.AAEKSF.KLIVNG.RLN.KWGRSQA.RGKEKEK....TDSGI.L...P.LP.ALP
Retrocopy QCAFIQVSTGQAAEAAAEKSFDKLIVNGCRLNIKWGRSQASRGKEKEKNRS<TDSGIQLQTIPALP*ALP

Parental  PPPAAEEEASANYFNLPPSGPPAVVNIALPPPPGI-APPPPPGFGPHMFHPMGPPPPFMRAPGPIHYPSQ
          PP.AA.E.ASANYFNLP...P.AVVN.A.PP.P.....PP.PGF.PH....MGPP.PF...PG.IHY.S.
Retrocopy PPTAA-EDASANYFNLPQHDPLAVVNTAQPPAPSL<STPPTPGFRPHIITSMGPPLPFITTPGLIHYLSH

Parental  DPQRMGAHAGKHSSP
          DPQRMGAHA.KH..P
Retrocopy DPQRMGAHARKHRKP

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_1691 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000009040	2 retrocopies	retro_mluc_1453, retro_mluc_153,
Monodelphis domestica	ENSMODG00000009574	1 retrocopy	retro_mdom_186,
Nomascus leucogenys	ENSNLEG00000010397	2 retrocopies	retro_nleu_1691 , retro_nleu_1800,
Ictidomys tridecemlineatus	ENSSTOG00000027197	1 retrocopy	retro_itri_1188,