RetrogeneDB ID: retro_nleu_1706

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397305.1:17618766..17619246(-)
• Located in intron of: ENSNLEG00000010198

Retrocopy information

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

Parental gene information

• Parental gene symbol: MFF
• Ensembl ID: ENSNLEG00000013420
• Aliases: None
• Description: mitochondrial fission factor [Source:HGNC Symbol;Acc:24858]

Sequence

>retro_nleu_1706
GTGAGTGGGGCAGCATTTCCTTCTCCCGCTGCTGCTGAGATGGCAGAAATTAGTCGAATTCAGTACGAAATGGAATATAC
TGAAGGCATTAGTCAGCGAATGAGGGCCCTAGAAAAGTTAAAAGTAGCACCGCCAAACGCCGATCTGGAACAAGGATTCC
AAGAAGGAGTTCCAAATGCTAGCGTGATAACGCAAGTTCCAGAGAGGATTGTTGTAGCAGGAAATAATGAATATGTTTCA
TTTTCAAGACCAGCAGATCTTGACCTTGTTCAGTCAACTCCCATTAAACCCCTGGCACTAAAAACACACCCTCGTGTACT
TACGCTAAGTGAAAGACCACTCGATTTTCTGGATTTAGAAAGACCTCCTACAACCCCTCAAAATGAAGAAATCCGTGTAG
CTGGCAGACTAAAAAGAGAGCGGTCTACGAGTGAAAATGCTGTTCGCCAAAAGGGACAGCTGATCAGAAATGATTCTCTG

Alignment

ORF - retro_nleu_1706 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.88 %
• Parental protein coverage: 50.47 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VSGAAFPSPTAAEMAEISRIQYEMEYTEGISQRMRVPEKLKVAPPNADLEQGFQEGVPNASVIMQVPERI
          VSGAAFPSP.AAEMAEISRIQYEMEYTEGISQRMR..EKLKVAPPNADLEQGFQEGVPNASVI.QVPERI
Retrocopy VSGAAFPSPAAAEMAEISRIQYEMEYTEGISQRMRALEKLKVAPPNADLEQGFQEGVPNASVITQVPERI

Parental  VVAGNNEDVSFSRPADLDLIQSTPFKPLALKTPPRVLTLSERPLDFLDLERPPTTPQNEEIRAVGRLKRE
          VVAGNNE.VSFSRPADLDL.QSTP.KPLALKT.PRVLTLSERPLDFLDLERPPTTPQNEEIR..GRLKRE
Retrocopy VVAGNNEYVSFSRPADLDLVQSTPIKPLALKTHPRVLTLSERPLDFLDLERPPTTPQNEEIRVAGRLKRE

Parental  RSMSENAVRQNGQLVRNDSL
          RS.SENAVRQ.GQL.RNDSL
Retrocopy RSTSENAVRQKGQLIRNDSL

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_1706 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 6 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000021319	2 retrocopies	retro_btau_1233, retro_btau_826,
Callithrix jacchus	ENSCJAG00000012973	1 retrocopy	retro_cjac_4058,
Cavia porcellus	ENSCPOG00000011881	1 retrocopy	retro_cpor_803,
Homo sapiens	ENSG00000168958	2 retrocopies	retro_hsap_3391, retro_hsap_347,
Microcebus murinus	ENSMICG00000013200	1 retrocopy	retro_mmur_1002,
Nomascus leucogenys	ENSNLEG00000013420	1 retrocopy	retro_nleu_1706 ,