RetrogeneDB ID: retro_nleu_1240

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397286.1:5592536..5593848(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MFN1
• Ensembl ID: ENSNLEG00000005745
• Aliases: None
• Description: None

Sequence

>retro_nleu_1240
GGGGCACCTGCTGAAGGATTTCAGGCAAGATTACAGGAATTTCAGAATTTTGAACAAATCTTTGAGGAGTGTATCTCACA
GTCAGCAGTGAAAACAAAGTTTGAACAGCACACTATCAGAGCTAAACAGATACTAGCTACTGTAAAAAAAAAACGGATTC
AATAAACATGGCAGCTAAACAGAAAAGGCATTATGCAGTGAAAGAGAAGGAAGAGCAAACTGATAGACTGGACTTTATCT
GAAACCAGATGAACTTTTAACACTGGATGTTAAGAAAAAAACCAAGGAGGTTACTGGGGAGGTGGCAAACAAAGTGTCAT
GTGCAATGACAGATGAAATTTGTCAACTGGCTGTTTTGGTTGATGAATTTTGTTCAGAGTTTCATCCTACTCCAGATATA
TTAAAAATATATAAAAGTGAATTAAATAAGCATACAGAGGATGGTATGGGAAGAAATTTGGCTGATCGATGCACCAATGA
AGTAAGTACCTTAGTGCTTCAGTTCCAGCAAGAAATTGTTGAAAATTTGAAGCCATTACTTCCAGCTGGTATACAGGATA
AAGTACATACGCTGATCCCTCGCAAGAAATTTGATCTCAGTTATAATCTAAATTACCACAAGTTATGTTCAGATTTTCAA
GAGGATATTGTGTTTCATTTTTCCCTGGGCTGGTCTTCCATCGTACCTCAATTTTTGGGCCCTAGAAATGCTCAAATGGT
GCTCCTAGGATTATCAGAGCCTATCTTTCAGCTCCCTAGATCTTTAGCTTCTACTCCCACTGCTCCTACCAGTGCAGCAA
TGCCGGATAATGCATCACAGGAAGAACTCATGATTACATTAGTAACAGGATTGGCTTCTCTTACATCTAGAACTTCTATG
GGCATCGATATTGTTGAAGGAATGATTTGGAAAACTACAGGCTGGAAACTCATATCTGTTTCATTAACTACATATGGAGC
TTTGTATCTTTATGAAAGACTGTCCTGGACAACCCATGCCAAGGAGAGAGCCTTTAAACAGCAGTTTGTAAACTATGCAA
CCGAAACACTGAAGATGATTGCTAGCTCCACAAGTGCAAACTGCAGCCACCAAGTAAAACAACAGATGGCTACCACTTTT
GCTCGCCTGTGCCAACAAGTTGATATTACTCAAATACAACTGGAGGAAGAAATTGCTAGATTACCCAAAGAAATAGATCA
GTGGGAGAAAATACAAAACAATTTAAAGCTCTTAAGAAATAAAGCTGTTCAACTTGAAAATGAGCTGGAGAATTTTACTA
AGCAGTTTCTACCTTCACGCGATGAAGAATCC

Alignment

ORF - retro_nleu_1240 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.77 %
• Parental protein coverage: 66.06 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GALAEGFQARLQEFQNFEQIFEECISQSAVKTKFEQHTIRAKEILATVKNIM-DTISLAAEEKRHYSVEE
          GA.AEGFQARLQEFQNFEQIFEECISQSAVKTKFEQHTIRAK.ILAT......D.I..AA..KRHY.V.E
Retrocopy GAPAEGFQARLQEFQNFEQIFEECISQSAVKTKFEQHTIRAKQILATXXXXR<DSINMAAKQKRHYAVKE

Parental  REDQIDRLDFIRNQMN-LLTLDVKKKIKEVTEEVANKVACAVTDEICRLSVLVDEFCSEFHPNPDVLKIY
          .E.Q.DRLDFI.NQMN.LLTLDVKKK.KEVT.EVANKV.CA.TDEIC.L.VLVDEFCSEFHP.PD.LKIY
Retrocopy KEEQTDRLDFI*NQMN<LLTLDVKKKTKEVTGEVANKVSCAMTDEICQLAVLVDEFCSEFHPTPDILKIY

Parental  KSELSKHVEDGMGRNLAHRCTNEVNALVLQTQQEIIENVKPLLPAGIHDKLHTLIPCKKFDLSYNLNYHK
          KSEL.KH.EDGMGRNLA.RCTNEV..LVLQ.QQEI.EN.KPLLPAGI.DK.HTLIP.KKFDLSYNLNYHK
Retrocopy KSELNKHTEDGMGRNLADRCTNEVSTLVLQFQQEIVENLKPLLPAGIQDKVHTLIPRKKFDLSYNLNYHK

Parental  LCSDFQEDIVFRFSLGWSSLVHRFLGPRNAQRVLLGLSEPIFQLPRSLASTPTAPTTPATPDNASQEELM
          LCSDFQEDIVF.FSLGWSS.V..FLGPRNAQ.VLLGLSEPIFQLPRSLASTPTAPT..A.PDNASQEELM
Retrocopy LCSDFQEDIVFHFSLGWSSIVPQFLGPRNAQMVLLGLSEPIFQLPRSLASTPTAPTSAAMPDNASQEELM

Parental  ITLVTGLASLTSRTSVGIIIVGGVIWKTIGWKLLSVSLTMYGALYLYERLSWTTRAKERAFKHQFVNYAT
          ITLVTGLASLTSRTS.GI.IV.G.IWKT.GWKL.SVSLT.YGALYLYERLSWTT.AKERAFK.QFVNYAT
Retrocopy ITLVTGLASLTSRTSMGIDIVEGMIWKTTGWKLISVSLTTYGALYLYERLSWTTHAKERAFKQQFVNYAT

Parental  EKLEMIVSSTSANCSHQVKRQMATTFARLCQQVDITQKQLEEEIARLLKEIDQLEKIQNNLKLLSNKAVQ
          E.L.MI.SSTSANCSHQVK.QMATTFARLCQQVDITQ.QLEEEIARL.KEIDQ.EKIQNNLKLL.NKAVQ
Retrocopy ETLKMIASSTSANCSHQVKQQMATTFARLCQQVDITQIQLEEEIARLPKEIDQWEKIQNNLKLLRNKAVQ

Parental  LENELENFTEQFLPSSNEES
          LENELENFT.QFLPS..EES
Retrocopy LENELENFTKQFLPSRDEES

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_1240 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000013155	1 retrocopy	retro_cjac_554,
Nomascus leucogenys	ENSNLEG00000005745	1 retrocopy	retro_nleu_1240 ,
Pongo abelii	ENSPPYG00000014318	1 retrocopy	retro_pabe_3682,