RetrogeneDB ID: retro_nleu_726

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397271.1:29157896..29159059(+)
• Located in intron of: ENSNLEG00000026731

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_726
ATAAGCTCCTCGAGCTTCTCCCTAGTGGGCAGCAGCAGCTTCCAAGGTTGCCTGGGCGGAGGCTATGGTGGGGCCAGTGG
CGTGGGAGGCATCACCGCCATCATGGTCAACCAGAGCCTGCTAAGCCCCCTTAACCTGGAGGTGGACCCCAAAATCCAGG
CTGTGTGCACCCAGGAGAAGCAGCAGATCAAGACCCTCAACAACAAGTTTGCCTCCTTCATAGACAAGGTATGGTTCCTG
GAGCAGCAGACAAGATGCTGGAGACTTAAATGGAGCCTCCTGCAGCAGCAGAGATGGCTCAGAGCAACATGGACAACATG
TTCCAGAGCTACATCAACAACCTTAGCAGCAGCTGAAGACTCTGGGCCAGGAGAAGCTGAAGCTGGAGGCGGAGCTTGGC
AACATGCAGGGGCTGGTGGAGGACTTCAAGAACAAGTATGAGGATGAGATCAATAAGCGTACAGAGATGGAGAATGAATT
TGTCCTCATCAAAAGGATGTGGATGAAGGTTACATGAACAAGGTAGAGCTGGAGTCTCACCTGGAAGGGCTGACTGACGA
GATCAATTTCCTCAAGCAGCTGTATGAAGAGGAGATCTGGGAGCTGCAGTCCCAGATCTCGGACACATCTGTGGTGCTGT
CCATGGACAACAGCCGCTCCCTGGGCATGAACAGCATCATTGCTGAGGTCAAGGCGCCATACGAGGAGATCGCCAACTGC
AGGCAGGCCAAGACTGAGAGCATGTACCAGATCAAGTATGAGGAGCTGCAGACATTGGCTGGGAAGCACAAGAATGACCT
GCAGTGTACAAAGACTGAGATTTCTGAAATGAACCGGAACATCAGCCGGCTCCAGGCTGAGACTGAGGGCCTCAAAGGCC
AGAGGGCTTCCCTGGAGGCCGCCATCACAGATGTCGGCAGCACAGGGAGCTGGCTGTTAAGGATGCCAACGCCAAGCTGG
CCAAGCTGGAGGCCGCGCTGCAGCGGGCCAAGCAGGACATGGCGTGGCAACTGCTTGAGTACCAGGAACTGATGAACGTC
AAGCTGGCCCTGGACATTGAGATAGCCACCTACAGGAAGCTGCTGGAGGACGAGGAGAGCCAGCTGGACTCTGGGATGTA
GAACATGAGTATCCATACGAAGACCACCAGTGGTTATGCAGGT

Alignment

ORF - retro_nleu_726 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.93 %
• Parental protein coverage: 83.58 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  LGSSSLYGLGASRPRVAVRSAYGGPVGAG-IREVTINQSLLAPLRLDADPSLQRVRQEEREQIKTLNNKF
          ..SSS....G.S.........YGG..G.G.I.....NQSLL.PL.L..DP..Q.V...E..QIKTLNNKF
Retrocopy ISSSSFSLVGSSSFQGCLGGGYGGASGVGGITAIMVNQSLLSPLNLEVDPKIQAVCTQEKQQIKTLNNKF

Parental  ASFIDKVRFLEQQNKLLETKWTLLQEQK-SAKSSRLPDIFEALIAGLRG-QLEALQVDGGRLEAELRSMQ
          ASFIDKV.FLEQQ......KW..L..Q......S.....F...I..L...QL..L......LEAEL..MQ
Retrocopy ASFIDKVWFLEQQTRCWRLKWS-LLQQQ<EMAQSNMDNMFQSYINNLSS<QLKTLGQEKLKLEAELGNMQ

Parental  DVVEDFKNKYEDEINRRAAAENEFVVLK-KDVDAAYMGKVELEAKVDALNDEINFLRTLNETELTELQSQ
          ..VEDFKNKYEDEIN.R...ENEFV..K.KDVD..YM.KVELE.....L.DEINFL..L.E.E..ELQSQ
Retrocopy GLVEDFKNKYEDEINKRTEMENEFVLIK<KDVDEGYMNKVELESHLEGLTDEINFLKQLYEEEIWELQSQ

Parental  ISDTSVVLSMDNSRSLDLDGIIAEVKAQYEEMAKCSRAEAEAWYQTKFETLQAQAGKHGDDLRNTRNEIS
          ISDTSVVLSMDNSRSL....IIAEVKA.YEE.A.C..A..E..YQ.K.E.LQ..AGKH..DL..T..EIS
Retrocopy ISDTSVVLSMDNSRSLGMNSIIAEVKAPYEEIANCRQAKTESMYQIKYEELQTLAGKHKNDLQCTKTEIS

Parental  EMNRAIQRLQAEIDNIKNQRAKLEAAIAEAEERG-ELALKDARAKQEELEAALQRAKQDMARQLREYQEL
          EMNR.I.RLQAE....K.QRA.LEAAI......G.ELA.KDA.AK...LEAALQRAKQDMA.QL.EYQEL
Retrocopy EMNRNISRLQAETEGLKGQRASLEAAITDVGSTG<ELAVKDANAKLAKLEAALQRAKQDMAWQLLEYQEL

Parental  MSVKLALDIEIATYRKLLEGEESRLAGDGVGAVNISVVNSTGGSSSG
          M.VKLALDIEIATYRKLLE.EES.L.....G..N.S....T.....G
Retrocopy MNVKLALDIEIATYRKLLEDEESQLDS---GM*NMSIHTKTTSGYAG

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_726 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,