RetrogeneDB ID: retro_nleu_2984

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397542.1:709501..710170(-)
• Located in intron of: ENSNLEG00000000246

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBXN2B
• Ensembl ID: ENSNLEG00000001356
• Aliases: None
• Description: None

Sequence

>retro_nleu_2984
ACGGACACCACCTCAACGTCATTTACAGGTGGAGGATACAGATTGGGTAATTCCTTTTGTAAGCGGTCTGAATATACGTA
TGGAGAAAATCAGCTGCAAGATGTTCAGATTTTGCTTCAACTGTGGAGCGATGGTTTCAGTTTAGATGATGGAGAATTGA
GACCTTACAAGGAACCAACAAATGCTCAATTTCTGGAGTTTGTTAAGAGAGGAGAGACTCCCCTGGAGCTTCAGTGCCTT
GTTCATGGTGGCCAAGTGAATTTGGATATGGAGGATCATCAGGATCAAGAATACATAAAACCTAGATTGAGGTTCAAGGC
TTTTAGTGGAGAAGGGCAAAAACTTGGAAGGCTTACACCTGAAATAGTACACCTTCCTCTCCAGAAGAGGAGGATAAACC
AACACTTAACGTGGTTGTTTTTACTGATGATTCAGTGCCAACAACAAAAATTCAAATCAGGTTAGCAAGACGGGAGTCGT
TTGATACAAAGATTCAATAGTACACACAGGATCCTGGATGTCCGGAACTTTATTGTACAGTCTTGTCCTGAATTTGCAGC
TCTTGACTTTATTCTTGTGACTTCATTTCCGAATAAAGAGCTAACAGATGAAAGCCTGACACTGCTAGAAGCAGATATTC
TTAACACTGTGTTACTCCATCAACTAAAA

Alignment

ORF - retro_nleu_2984 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.05 %
• Parental protein coverage: 67.67 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SDDKSKSFTGGGYRLGSSFCKRSEYIYGENQLQDVQILLKLWSNGFSLDDGELRPYNEPTNAQFLESVKR
          .D..S.SFTGGGYRLG.SFCKRSEY.YGENQLQDVQILL.LWS.GFSLDDGELRPY.EPTNAQFLE.VKR
Retrocopy TDTTSTSFTGGGYRLGNSFCKRSEYTYGENQLQDVQILLQLWSDGFSLDDGELRPYKEPTNAQFLEFVKR

Parental  GEIPLELQRLVHGGQVNLDMEDHQDQEYIKPRLRFKAFSGEGQKLGSLTPEIVSTP-SSPEEEDKSILNA
          GE.PLELQ.LVHGGQVNLDMEDHQDQEYIKPRLRFKAFSGEGQKLG.LTPEIV..P.S..EE.DK..LN.
Retrocopy GETPLELQCLVHGGQVNLDMEDHQDQEYIKPRLRFKAFSGEGQKLGRLTPEIVHLP<SPEEE-DKPTLNV

Parental  VVLIDDSVPTTKIQIRLA-DGSRLIQRFNSTHRILDVRNFIVQSRPEFAALDFILVTSFPNKELTDESLT
          VV..DDSVPTTKIQIRLA.DGSRLIQRFNSTHRILDVRNFIVQS.PEFAALDFILVTSFPNKELTDESLT
Retrocopy VVFTDDSVPTTKIQIRLA>DGSRLIQRFNSTHRILDVRNFIVQSCPEFAALDFILVTSFPNKELTDESLT

Parental  LLEADILNTVLLQQLK
          LLEADILNTVLL.QLK
Retrocopy LLEADILNTVLLHQLK

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_2984 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.

---

Parental genes homology:

Parental genes homology involve 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000215114	1 retrocopy	retro_hsap_3923,
Nomascus leucogenys	ENSNLEG00000000751	1 retrocopy	retro_nleu_2612,
Nomascus leucogenys	ENSNLEG00000001356	1 retrocopy	retro_nleu_2984 ,
Nomascus leucogenys	ENSNLEG00000009341	1 retrocopy	retro_nleu_2800,
Pongo abelii	ENSPPYG00000018610	1 retrocopy	retro_pabe_3195,
Pan troglodytes	ENSPTRG00000033886	1 retrocopy	retro_ptro_2668,