RetrogeneDB ID: retro_nleu_1263

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397286.1:18568090..18568945(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000018343
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MRRF
• Ensembl ID: ENSNLEG00000017177
• Aliases: None
• Description: None

Sequence

>retro_nleu_1263
CCATCACACGAGTCTTTCCTTAGTAACCTGGGCGATAGCTGTGGATGTTTCCAAGGATTGTCTTCAGTCATGGCCTTGGG
ATTAAAGTGCTCCCACATGGTCCACCCTGCCTTTCGCAATTATCTTGCAGCCTCTATCAGACCCGTTTCAGAAGTTACAC
TGAAGACAGTGCATGAAAGACAACATGGCCATAGGCAATGCGTGGCCTATTCAGCTGTACCAGTCCACCATTTTGCTACC
AAGAAAGCCAAAGCCAAAGGGAAAGGAAAGTCCCAAACCAGAGTGAATATTAGTGCTGCCTTGGTTGAGGACATAATCAA
CTTGGAAGAGGTGAATGAAGAAATGAAGTCTGTGATAGAAGCACTCAAGGATAATTTCAATAAGACTCTCAATATAAGGA
CCTCACCAGGATCCCTTGACAAGATTGCTGTGGTAACTGCTGATGGGAAACTTGCTTTAAACCAGATTAGCCAGATCTCC
ATGAAGTCGCCACAGCTGATTTTGGTGAATATGGCCAGTTCCCCAGAGTGTACAGCTGCAGCTATCAAGGCTATAAGAGA
AAGTGGAATGAATCTGAACCCAGAAGTGGAAGGGGCGCTAATTCGGGTACCCATTCCCCAAGTAATCAGAGAGCACAGAG
AAATGCTGGTGAAACTGGCCAAACAGAACACCAACAAGGCCAAATACTCTTTACGGAAGGTTTGCACCAACGCAGTGAAC
AAGCTGAAGAAATCCAAGGATACGGTCTCGGAGGACACCATTAGGCTAATAGAGAAACAGATCAGCCAAATGGCTGATGA
CACAGTGGCAGAACTGGACAGGCATCTGGCAGTGAAGACCAAAGAACTCCTTGGA

Alignment

ORF - retro_nleu_1263 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.74 %
• Parental protein coverage: 84.82 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PSHESFLSNLGDSCGCFQGLSSVMALGLKCFRMVYPAFRNYLAASIRPVSEVALKTVHERQHGHRQYVAY
          PSHESFLSNLGDSCGCFQGLSSVMALGLKC..MV.PAFRNYLAASIRPVSEV.LKTVHERQHGHRQ.VAY
Retrocopy PSHESFLSNLGDSCGCFQGLSSVMALGLKCSHMVHPAFRNYLAASIRPVSEVTLKTVHERQHGHRQCVAY

Parental  SAVPVRHFATKKAKAKGKGQSQTRVNINAALVEDIINLEEVNEEMKSVIEALKDNFNKTLNIRTSPGSLD
          SAVPV.HFATKKAKAKGKG.SQTRVNI.AALVEDIINLEEVNEEMKSVIEALKDNFNKTLNIRTSPGSLD
Retrocopy SAVPVHHFATKKAKAKGKGKSQTRVNISAALVEDIINLEEVNEEMKSVIEALKDNFNKTLNIRTSPGSLD

Parental  KIAVVTADGKLALNQISQISMKSPQLILVNMASFPECTAAAIKAIRESGMNLNPEVEGTLIRVPIPQVTR
          KIAVVTADGKLALNQISQISMKSPQLILVNMAS.PECTAAAIKAIRESGMNLNPEVEG.LIRVPIPQV.R
Retrocopy KIAVVTADGKLALNQISQISMKSPQLILVNMASSPECTAAAIKAIRESGMNLNPEVEGALIRVPIPQVIR

Parental  EHREMLVKLAKQNTNKAKDSLRKVRTNSMNKLKKSKDTVSEDTIRLIEKQISQMADDTVAELDRHLAVKT
          EHREMLVKLAKQNTNKAK.SLRKV.TN..NKLKKSKDTVSEDTIRLIEKQISQMADDTVAELDRHLAVKT
Retrocopy EHREMLVKLAKQNTNKAKYSLRKVCTNAVNKLKKSKDTVSEDTIRLIEKQISQMADDTVAELDRHLAVKT

Parental  KELLG
          KELLG
Retrocopy KELLG

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_1263 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 10 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000007351	1 retrocopy	retro_cpor_877,
Homo sapiens	ENSG00000148187	1 retrocopy	retro_hsap_4897,
Gorilla gorilla	ENSGGOG00000023499	1 retrocopy	retro_ggor_98,
Mus musculus	ENSMUSG00000026887	1 retrocopy	retro_mmus_340,
Nomascus leucogenys	ENSNLEG00000017177	1 retrocopy	retro_nleu_1263 ,
Pongo abelii	ENSPPYG00000019570	1 retrocopy	retro_pabe_80,
Pan troglodytes	ENSPTRG00000021324	1 retrocopy	retro_ptro_3265,
Rattus norvegicus	ENSRNOG00000025997	2 retrocopies	retro_rnor_1477, retro_rnor_2654,
Sarcophilus harrisii	ENSSHAG00000012469	2 retrocopies	retro_shar_610, retro_shar_704,
Tupaia belangeri	ENSTBEG00000016569	1 retrocopy	retro_tbel_4411,