RetrogeneDB ID: retro_nleu_868

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397275.1:23144624..23145523(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SLC25A38
• Ensembl ID: ENSNLEG00000005614
• Aliases: None
• Description: None

Sequence

>retro_nleu_868
ATGTCGGAGACATGGTGGAAATGCTTATGGTATGAAGAAAACATGAGGCACCACCAGTTACATCTGGTGATCAAGGCTTT
CCTGTGTGGCTGCATCAGTGGCACATGCTCTACCCTCCTTTTCCAACCTCTGGATCTCCTTAAAACACGCCTGCAAACCC
TCCAGCCCTCAGATCATGGGTCTAGACGTGTTGGGATGTTGGCTGTACTCTTGAAGGTGGTTCGCACAGAGGGTCTTTTG
GGCCTTTGGAAAGGGATGTCCCCTTCCACTGTGAGATGTGTCCCTGGCGTTGGAATCTACTTTGGCACTCTCTACTCTTT
GAAGCAGTATTTCTTGCAAGGCCATCCCCCAACCGCCCTGGAGTCAATCATGCTGGGGGTGGGCTCTCGCAATGTTGCAG
GGGTCTGTATGTCACCCATCACTGTAATCAAGATGCGCTATGACAGTGGGAAATATGGCTATGAGAGTATCTACGCTGCC
CTGAGGAGCATCTATCGCAGTGAGGGGCACCGGGGCCTCTTCAGTGGTCTGACAGCAACTCTCCTTCGAGATGCACCCTT
TTCAGGAATCTACCTGATGTTTTACCACCAGACCAAAAACATAGTGCCCCATGACCAGGTGGATGCAACCTTTATTCCTA
TTACAAATTTCCGCTGTGAGATATTTGCCGGTATTCTGGCCTCACTGGTAACTCAACCTGCAGATGTTATCAAAACTCAT
ATGCAGCTTTACCCACTGAAGTTTCAATGGATTGGCCAAGCAGTGACACTTATTTTCAAAACTATGGACTATGTGGCTTC
TTCCAAGGTGGCATCCCCTGAGCCCTCCGCAGAACTCTAATGGCAGCAATGGCGTGGACGGTGTAAGAAGAGGTGATGAC
CAAGATGGGCCTGAAGTCC

Alignment

ORF - retro_nleu_868 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.36 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MSETQWKRLWYEENMRHHQLHPVIKAFLCGSISGTCSTLLFQPLDLLKTRLQTLQPSDHGSRRVGMLAVL
          MSET.WK.LWYEENMRHHQLH.VIKAFLCG.ISGTCSTLLFQPLDLLKTRLQTLQPSDHGSRRVGMLAVL
Retrocopy MSETWWKCLWYEENMRHHQLHLVIKAFLCGCISGTCSTLLFQPLDLLKTRLQTLQPSDHGSRRVGMLAVL

Parental  LKVVRTESLLGLWKGMSPSIVRCVPGVGIYFGTLYSLKQYFLRGHPPTALESIMLGVGSRSVAGVCMSPI
          LKVVRTE.LLGLWKGMSPS.VRCVPGVGIYFGTLYSLKQYFL.GHPPTALESIMLGVGSR.VAGVCMSPI
Retrocopy LKVVRTEGLLGLWKGMSPSTVRCVPGVGIYFGTLYSLKQYFLQGHPPTALESIMLGVGSRNVAGVCMSPI

Parental  TVIKTRYESGKYGYESIYAALRSIYRSEGHRGLFSGLTATLLRDAPFSGIYLMFYNQTKNIVPHDQVDAT
          TVIK.RY.SGKYGYESIYAALRSIYRSEGHRGLFSGLTATLLRDAPFSGIYLMFY.QTKNIVPHDQVDAT
Retrocopy TVIKMRYDSGKYGYESIYAALRSIYRSEGHRGLFSGLTATLLRDAPFSGIYLMFYHQTKNIVPHDQVDAT

Parental  LIPVTNFSCGIFAGILASLLTQPADVIKTHMQLYPLKFQWIGQAVTLIFK-DYGLRGFFQGGIPRALRRT
          .IP.TNF.C.IFAGILASL.TQPADVIKTHMQLYPLKFQWIGQAVTLIFK..YGL.GFFQGGIP.ALRRT
Retrocopy FIPITNFRCEIFAGILASLVTQPADVIKTHMQLYPLKFQWIGQAVTLIFK<NYGLCGFFQGGIP*ALRRT

Parental  LMAAMAWTVYEEMMAKMGLKS
          LMAAMAWTV.EE.M.KMGLKS
Retrocopy LMAAMAWTV*EEVMTKMGLKS

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_868 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	ENSG00000144659	1 retrocopy	retro_hsap_266,
Gorilla gorilla	ENSGGOG00000013530	1 retrocopy	retro_ggor_315,
Nomascus leucogenys	ENSNLEG00000005614	1 retrocopy	retro_nleu_868 ,
Pan troglodytes	ENSPTRG00000014772	1 retrocopy	retro_ptro_223,
Rattus norvegicus	ENSRNOG00000018552	1 retrocopy	retro_rnor_2942,
Tupaia belangeri	ENSTBEG00000015842	1 retrocopy	retro_tbel_1400,