RetrogeneDB ID: retro_nleu_1265

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397286.1:20892638..20893758(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FBLIM1
• Ensembl ID: ENSNLEG00000007650
• Aliases: None
• Description: None

Sequence

>retro_nleu_1265
ATGGCCTCAAAGCCTGAGAAGAGTGTGGCATCGTCTGTCTTTATCACCCTTGCACCCCTGGGCCGCGATTTAGCTGTGGT
TGAGGAAGGGAGCCAGGTGGTTTGTGAGGCCTGATGTGGCCTCCCCTGGGAGGCTCCTGCCCCCATGAAGCCACCCGGAG
CTGGCTTAGCGAGAAAGCCCAGCCCCTGGGCACCCCCTGGCAGGGCTGCAGCCACAGTGCCAGCTACACCTCTGCAGCTC
TCCAGTGGAGGATGCTCACCCCCTCCTCCTGTCCTGGATGGTGAGGACGCACTTCCTGACCTGGACCTCATCCCACCCCC
TCCACTGCCCCCTCCGGTGCTCCTGCCTTATGAAGAAGAGGCTCCTGCTCCAATGGGGGCCTCACTCATTGCAGAGTTAG
AGCAGTTGCACCTGCCCTCGCCGCAACCCCAACCACAGGCCCCGGTGGAGGAACCTTCAGTCCAGCCTGGGCCCAGTCCC
CTCAGGCCTGGGGAGGAAGAGCTTCCACCTTCCCCAGCAGAGCCTGTTGAGAGAGAGTCGTCCACAGACATCTGTGCCTT
CTGCCACAAAACCGTGTCCCCCCCAAGAGCTGGCTGTGGAGGCCACGAAGAGGCAGTAACATGCCCAGTGCTTCACGTGG
CACACCTGCTGCCGCCAGCTGGCTGGGCAGAGCTTCTACCAGGATGGGCGACCCCTCTGCGAACCCTGCTACCAGGACAC
ACTGGAGAAGTGCGGCAAGTGTGGCGAGGTGGTCTGGGAGCACATCATCAGGGCCCTGGGCCAGGCCTTCCACCCCTCCT
GCTTCATGTGTGTGACCTGTGCCCGGTGCATCCAGGATGAGAGCTTTGACCTGGGCAGCCAAAACGAGATGTACTGCCTG
GACGAATTCTACAAGAAATCGGCCCCTGTATGCAGCATCTGTGAGAATCCCATTATTCCTTGGGGTGGGAAAGATGCCTT
CAAAATCAAGTGCATGGGAAGAAACTTCCATGTAAATTGCTACAGGTGTGAGGACTGCAGGATCCTCCTGTCTGTGGAGC
CCAGGAACCAAGGCTGCTACCCCCTGGACAACCGTCTCTTCTGCAAGCAGTGCCATGTGAAGCAGAGTGCTGCTGGGTGC

Alignment

ORF - retro_nleu_1265 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.63 %
• Parental protein coverage: 99.73 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MASKPEKRVASSVFITLAPPRRDVAVAEEVRQAVCEAQRGRPWEAPAPVKTPEAGLAGRPSPWTPPGRAA
          MASKPEK.VASSVFITLAP..RD.AV.EE..Q.VCEA..G.PWEAPAP.K.P.AGLA..PSPW.PPGRAA
Retrocopy MASKPEKSVASSVFITLAPLGRDLAVVEEGSQVVCEA*CGLPWEAPAPMKPPGAGLARKPSPWAPPGRAA

Parental  ATVPAVPLQLSNGGCPPPPPVLDGEDVLPDLDLLPPPPPPPPVLLPSEEEAPAPMGASLIADLEQLHLSP
          ATVPA.PLQLS.GGC.PPPPVLDGED.LPDLDL.PPPP.PPPVLLP.EEEAPAPMGASLIA.LEQLHL..
Retrocopy ATVPATPLQLSSGGCSPPPPVLDGEDALPDLDLIPPPPLPPPVLLPYEEEAPAPMGASLIAELEQLHL--

Parental  PPPLPPPQAPAEGPSVQPG--PLRPVEEELPPPPAESVEKGASTDICAFCHKTVS-PRELAVEAMKRQYH
          P.P.P.PQAP.E.PSVQPG..PLRP.EEELPP.PAE.VE...STDICAFCHKTVS.P.ELAVEA.KRQ.H
Retrocopy PSPQPQPQAPVEEPSVQPGPSPLRPGEEELPPSPAEPVERESSTDICAFCHKTVS>PQELAVEATKRQ*H

Parental  AQCFTCRTCRRQLAGQSFYQKDGRPLCEPCYQDTLERCGKCGEVVRDHIIRALGQAFHPSCFTCVTCARC
          AQCFT..TC.RQLAGQSFYQ.DGRPLCEPCYQDTLE.CGKCGEVV..HIIRALGQAFHPSCF.CVTCARC
Retrocopy AQCFTWHTCCRQLAGQSFYQ-DGRPLCEPCYQDTLEKCGKCGEVVWEHIIRALGQAFHPSCFMCVTCARC

Parental  IGDESFALGXXERLPSMGSFASRKFAPVCSICENPIIPRDGKDAFKIECMGRNFHENCYRCEDCRILLSV
          I.DESF.LG..........F...K.APVCSICENPIIP..GKDAFKI.CMGRNFH.NCYRCEDCRILLSV
Retrocopy IQDESFDLGSQNEMYCLDEF-YKKSAPVCSICENPIIPWGGKDAFKIKCMGRNFHVNCYRCEDCRILLSV

Parental  EPTDQGCYPLNNRLFCKPCHVKRSAAGC
          EP..QGCYPL.NRLFCK.CHVK.SAAGC
Retrocopy EPRNQGCYPLDNRLFCKQCHVKQSAAGC

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_1265 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000018725	1 retrocopy	retro_btau_1013,
Nomascus leucogenys	ENSNLEG00000007650	2 retrocopies	retro_nleu_1265 , retro_nleu_2840,
Pteropus vampyrus	ENSPVAG00000009000	1 retrocopy	retro_pvam_415,