RetrogeneDB ID: retro_nleu_593

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397268.1:24134091..24135180(+)
• Located in intron of: ENSNLEG00000005278

Retrocopy information

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

Parental gene information

• Parental gene symbol: KRT7
• Ensembl ID: ENSNLEG00000017758
• Aliases: None
• Description: None

Sequence

>retro_nleu_593
ATCAGCTCCTCAAGCCTCTCCCGAGTGAGCAGCAGCAGCTTCCGGAGTGGCCTGGGCGGAGGCTATGGTGGGGCCAGCGG
CATAGGAGGCATCACCGTTGTCACGTTCAACCAGAGCCTGCTGAGCCCTGTTAACCTGGAGGTGGATCCCAATATCCAGG
CCATATACACCCAGGAGAAGGAGCAGATCAAGACCCTCAACAACAAGTTTGCCTCCATCATCGACAAGGCATGGTTCCTG
CAGCAGCAGAACAAGATGCTGGAGACCAAGTGGAGCCTCCTGCAGCAGCAGAAGATGGCTCGGATCAACATGTTTGAGAG
CTACATGAACAACCTTAGGTGGCAGCTGGAGGTTCTGGGCCAGGAGAAGCTGAGCTGGAGGCGGAGCTTGGCAATATGCA
GGGGCTGGTGGAGGACTTCAAGAAAAGTATGAGGATGAGATCAATAAGCGTACAGAAATGGAGAATGAATTTGTCCTCAT
CAAGAAGGACGTGGATGAAGCTTACATGAACAAGGTAGAGCTGGAGTCTTGCCTGGAAGGGCTGACTGAGGAGATCAACT
CCCTCAGGCAGCTGGATGAAGAGGAGATCCAGGAGCTGCAGTCCCAGATCTTGGGCACGTCTGCAGTGCTGTCCATGGAC
AACAGCCGCTCCCTGGACATGGACAGCATCATCGCTGAGGTCAAGGCGCAGTGCGAGGAGATCGCTAACCGCAGCTGGGC
TGAGGCTGAGAGCATGTACCAGATCAAGTATGTGGAGCTGCAGACGCTGGCTGGGAAGCACCGGGATGACCTGCAGCGCA
CGAAGACTGAGATCTCCGAGATGAACCAGAACATCAGCGGCTCCAGGCTGAGATTGAGGGCCTCAAAGGCCAGAGGGCTT
CCCTGGAGGCCCCCATCGCAGATGCCGAGCAGCGTGGGGAGCTGGCCGTTAAGGATGCCAACGCCAAGCTGTCCGAGCTA
CAGGCCACCCTGCAGCGGGCCAAGCAGGATATGGCGCGGCAGCTGCGTGAGTACCAGGACCTGATGAACGTCAAGCTGGC
CCTGGACATGGAGATCGCCACCTACAGGAAGCTGCGGGAGGGTGAGGAG

Alignment

ORF - retro_nleu_593 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.34 %
• Parental protein coverage: 78.25 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  LGSSSLYGLGASRPRVAVRSAYGGPVG-AGIREVTINQSLLAPLRLDADPSLQRVRQEEREQIKTLNNKF
          ..SSSL.....S..R......YGG..G..GI..VT.NQSLL.P..L..DP..Q.....E.EQIKTLNNKF
Retrocopy ISSSSLSRVSSSSFRSGLGGGYGGASGIGGITVVTFNQSLLSPVNLEVDPNIQAIYTQEKEQIKTLNNKF

Parental  ASFIDKVRFLEQQNKLLETKWTLLQEQKSAKSSRLPDIFEALIAGLRGQLEALQVDG-GRLEAELRSMQD
          AS.IDK..FL.QQNK.LETKW.LLQ.Q...K..R....FE.....LR.QLE.L.......LEAEL..MQ.
Retrocopy ASIIDKAWFLQQQNKMLETKWSLLQQQ---KMARI-NMFESYMNNLRWQLEVLGQEK<AELEAELGNMQG

Parental  VVEDFKN-KYEDEINRRAAAENEFVVLKKDVDAAYMGKVELEAKVDALNDEINFLRTLNETELTELQSQI
          .VEDFK..KYEDEIN.R...ENEFV..KKDVD.AYM.KVELE.....L..EIN.LR.L.E.E..ELQSQI
Retrocopy LVEDFKK<KYEDEINKRTEMENEFVLIKKDVDEAYMNKVELESCLEGLTEEINSLRQLDEEEIQELQSQI

Parental  SDTSVVLSMDNSRSLDLDGIIAEVKAQYEEMAKCSRAEAEAWYQTKFETLQAQAGKHGDDLRNTRNEISE
          ..TS.VLSMDNSRSLD.D.IIAEVKAQ.EE.A..S.AEAE..YQ.K...LQ..AGKH.DDL..T..EISE
Retrocopy LGTSAVLSMDNSRSLDMDSIIAEVKAQCEEIANRSWAEAESMYQIKYVELQTLAGKHRDDLQRTKTEISE

Parental  MNRAI-QRLQAEIDNIKNQRAKLEAAIAEAEERGELALKDARAKQEELEAALQRAKQDMARQLREYQELM
          MN..I.QRLQAEI...K.QRA.LEA.IA.AE.RGELA.KDA.AK..EL.A.LQRAKQDMARQLREYQ.LM
Retrocopy MNQNI<QRLQAEIEGLKGQRASLEAPIADAEQRGELAVKDANAKLSELQATLQRAKQDMARQLREYQDLM

Parental  SVKLALDIEIATYRKLLEGEE
          .VKLALD.EIATYRKL.EGEE
Retrocopy NVKLALDMEIATYRKLREGEE

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_593 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 9 parental genes, and 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017950	2 retrocopies	retro_cjac_419, retro_cjac_648,
Nomascus leucogenys	ENSNLEG00000017733	8 retrocopies	retro_nleu_1913, retro_nleu_225, retro_nleu_2285, retro_nleu_2421, retro_nleu_2485, retro_nleu_2727, retro_nleu_2787, retro_nleu_672,
Nomascus leucogenys	ENSNLEG00000017740	1 retrocopy	retro_nleu_1808,
Nomascus leucogenys	ENSNLEG00000017746	5 retrocopies	retro_nleu_2270, retro_nleu_2596, retro_nleu_354, retro_nleu_457, retro_nleu_852,
Nomascus leucogenys	ENSNLEG00000017748	2 retrocopies	retro_nleu_2823, retro_nleu_3100,
Nomascus leucogenys	ENSNLEG00000017753	1 retrocopy	retro_nleu_1726,
Nomascus leucogenys	ENSNLEG00000017758	2 retrocopies	retro_nleu_593 , retro_nleu_726,
Nomascus leucogenys	ENSNLEG00000026579	1 retrocopy	retro_nleu_311,
Tursiops truncatus	ENSTTRG00000002820	2 retrocopies	retro_ttru_722, retro_ttru_865,