RetrogeneDB ID: retro_nleu_376

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397264.1:2992306..2992654(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MOB4
• Ensembl ID: ENSNLEG00000006881
• Aliases: None
• Description: None

Sequence

>retro_nleu_376
CATAAAGCTCCAAAAGAGTGTCCTGCTATAGCCTATACTAGACACACACTTGATGGTGCTGCATGTCTTCTGAAGAGCAA
TAAATATTTTCCCAGCAGGGTTAGCATAAGGAAATAATCTGTAGCAAAACTAGGATCAGTATGCCTTAGGATTTACAGGA
TATTTTCGCATGTTTATTTTCATCATTGGCAGATATTTGATGAATATGAAAATGAAACATTTTTGTGTCATCGGTTTACT
AAATTTGTGATGAAATAGATGAAATATAATTTGATGTCCAGGGATAACCTCATTGTACCAATTTTAGAAGAGGAAGTACA
GGATTCAGTTTCTGGGGAAAGTGAAGCA

Alignment

ORF - retro_nleu_376 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.93 %
• Parental protein coverage: 50.22 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  HKTPKECPAIDYTRHTLDGAACLLNSNKYFPSRVSIKESSVAKLGSVCRRIYRIFSHAYFHHRQIFDEYE
          HK.PKECPAI.YTRHTLDGAACLL.SNKYFPSRVSI...SVAKLGSVC.RIYRIFSH.YFHH.QIFDEYE
Retrocopy HKAPKECPAIAYTRHTLDGAACLLKSNKYFPSRVSIRK*SVAKLGSVCLRIYRIFSHVYFHHWQIFDEYE

Parental  NETFLCHRFTKFVMK---YNLMSKDNLIVPILEEEVQNSVSGESEA
          NETFLCHRFTKFVMK...YNLMS.DNLIVPILEEEVQ.SVSGESEA
Retrocopy NETFLCHRFTKFVMK*MKYNLMSRDNLIVPILEEEVQDSVSGESEA

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_376 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 9 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000000932	1 retrocopy	retro_etel_952,
Latimeria chalumnae	ENSLACG00000015430	1 retrocopy	retro_lcha_112,
Monodelphis domestica	ENSMODG00000012305	2 retrocopies	retro_mdom_1333, retro_mdom_963,
Nomascus leucogenys	ENSNLEG00000006881	2 retrocopies	retro_nleu_287, retro_nleu_376 ,
Oryctolagus cuniculus	ENSOCUG00000005712	1 retrocopy	retro_ocun_30,
Pan troglodytes	ENSPTRG00000012775	3 retrocopies	retro_ptro_1609, retro_ptro_626, retro_ptro_640,
Sarcophilus harrisii	ENSSHAG00000017821	1 retrocopy	retro_shar_351,
Sus scrofa	ENSSSCG00000016079	2 retrocopies	retro_sscr_804, retro_sscr_824,
Tarsius syrichta	ENSTSYG00000001726	1 retrocopy	retro_tsyr_1673,