RetrogeneDB ID: retro_nleu_2644

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397386.1:4671569..4672067(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GNAQ
• Ensembl ID: ENSNLEG00000002860
• Aliases: None
• Description: None

Sequence

>retro_nleu_2644
TTCGACCTGGAGGACATCATCTTCAGGATGGTGGATGTTGGGGGACAGCGGTCGGTGCAGAGGAAGTGGATCCACTGCTT
TGAGAACCTGACGTCCATCCTGTTTCTCGTCGCCCTCAGTGAATACGACCAAGTTCTGGTGTAGTCAGACAATGACAACC
GGATGGAGGAGAGCAAAGCCCTGTTCCGGACAATCATCGACTACCCCTGGTTCCAGAACTCCTCCGTCATCCTCTTCCTC
AACAAGAAGGACCTGCTGGAGGACAATATCCTGTACTCGCACCTGGTGGACTACTTCCCCGAGTTCGACGGGCCCCAGCA
GGACGCCCAGGCGGCGCGGGAGTTCATCCTGAAGATGTTAGTGGACATGAACCCCGACAGCGACAAGATCATCGACTCCC
ACTTCACGTGCGCCACCGACACGAAGAACATCCGCTTCGTGTTCGCGGCCGTGAAGGACACCATCCTGCAGCTCAGCCTC
AAGGAGTACAACTTGGTC

Alignment

ORF - retro_nleu_2644 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.95 %
• Parental protein coverage: 55.15 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPW
          FDL...IFRMVDVGGQRS..RKWIHCFEN.TSI.FLVALSEYDQVLV.SDN.NRMEESKALFRTII.YPW
Retrocopy FDLEDIIFRMVDVGGQRSVQRKWIHCFENLTSILFLVALSEYDQVLV*SDNDNRMEESKALFRTIIDYPW

Parental  FQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATD
          FQNSSVILFLNKKDLLE..I.YSHLVDYFPE.DGPQ.DAQAAREFILKM.VD.NPDSDKII.SHFTCATD
Retrocopy FQNSSVILFLNKKDLLEDNILYSHLVDYFPEFDGPQQDAQAAREFILKMLVDMNPDSDKIIDSHFTCATD

Parental  TENIRFVFAAVKDTILQLNLKEYNLV
          T.NIRFVFAAVKDTILQL.LKEYNLV
Retrocopy TKNIRFVFAAVKDTILQLSLKEYNLV

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_2644 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 3 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Nomascus leucogenys	ENSNLEG00000002860	2 retrocopies	retro_nleu_2644 , retro_nleu_2781,
Pongo abelii	ENSPPYG00000019311	1 retrocopy	retro_pabe_3536,
Tupaia belangeri	ENSTBEG00000009447	2 retrocopies	retro_tbel_2487, retro_tbel_2974,