RetrogeneDB ID: retro_nleu_2095

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397327.1:2767691..2768876(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MAPK6
• Ensembl ID: ENSNLEG00000006476
• Aliases: None
• Description: None

Sequence

>retro_nleu_2095
AAAACCCTTTTTGCTTCTGCTGATGACCTTGAACTAATGCGACTGACTTTATAATCTATTCCTGTTGCACATGATGAAGA
TCATCATGAGCTTCCCTATGTAATTCCTATTTACATAATAAATCTCCTGGCTGAGACACACAAACCTTTAACTCAGCTAC
TTCCAGGAATTAGTCGAGAAGCACTGAATTTCCTGGAACAAATTTTGACATTTAGCCCCATGGATCAGTTAATAGCAGAA
GAAGCGCTCTCCCATCCTTACATGAGCATATATTCTTTTCCAATGGATAAGCCAATTTCAAGCCATCCTTTTCATATTGA
AGATGAAGCTCATAATATTTTGCTTATGGATGAAACTCACAGTCACATTTATAACTGGGAAAGGTACCATGATTGTCAGT
TTTCAGAGCATGATTGGCCTATACATAACAACTTTGATATTGATGAAGTTCAGCTTGATCCAAGAGCTCTGTCTGATGTC
ACTGATGAAGAAGTACAAGTTGATCCCCGAAAATATTTGGATGGAGATCGGGAAATGCATCTGGGGGATCCTGCTTTTGA
TACCAATTACTCTGCTGAGCCTTGTTGGCAGTAACCAGATCATCATGAAAACAAATATTGTGATCTGGAGTGTAGCCATA
CTTGTAATTACAAAACGAGGTCATGATCATATTTAGATAACTTAGTTTGGAGAGGGAGTGAAGTTAACCGTTACTATGAA
CCCAAGCTTATTACAGATCTTTCCAATTGGAAGGAACAAAGCAAAGAAAAATCTGATAAGAAAAGCAAATCAAAATGTGA
AAGGAATGGATTGGTTAAAGCCCAGATAGTGCTAGAGGAAGCATCACAGCAACTGGCTGGAAAAAAAAGAGAAAAGAATC
AGGGATTTCATTTTCATTCCTTTATTGCAGGAACTATTCAATTTAGCTTCCAACATGAGCCTACTGATGTTGTTGATAAA
TTAAATGACTTGAATAGCTCAGTGTCCCAACTACAATTGAAAAGTTTGATATCAAAGTCAGTAAGCCAAGAAAAACAGGA
AAAAGGAATGGCAAATCTGGCTCAATTAGAAACTTTGTACCCATCTTCTTGGGACAGCCAGTTTGTGGGTGATGGGGAGA
ACTGTTTTCTCATAAATCAGTTTTGTGAAGTAAGAAAGGATGAACAAGTTAAGAAGGAAAACACA

Alignment

ORF - retro_nleu_2095 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.86 %
• Parental protein coverage: 54.92 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KTLFAGAHELEQMQLILESIPVVHEEDRQELLSVIPVYIRNDMTEPHKPLTQLLPGISREALDFLEQILT
          KTLFA.A..LE.M.L.L.SIPV.H.ED..EL..VIP.YI.N...E.HKPLTQLLPGISREAL.FLEQILT
Retrocopy KTLFASADDLELMRLTL*SIPVAHDEDHHELPYVIPIYIINLLAETHKPLTQLLPGISREALNFLEQILT

Parental  FSPMDRLTAEEALSHPYMSIYSFPMDEPISSHPFHIEDEVDDILLMDETHSHIYNWERYHDCQFSEHDWP
          FSPMD.L.AEEALSHPYMSIYSFPMD.PISSHPFHIEDE...ILLMDETHSHIYNWERYHDCQFSEHDWP
Retrocopy FSPMDQLIAEEALSHPYMSIYSFPMDKPISSHPFHIEDEAHNILLMDETHSHIYNWERYHDCQFSEHDWP

Parental  VHNNFDIDEVQLDPRALSDVTDEEEVQVDPRKYLDGDREKYLEDPAFDTNYSTEPCWQYSDHHENKYCDL
          .HNNFDIDEVQLDPRALSDVTDEE.VQVDPRKYLDGDRE..L.DPAFDTNYS.EPCWQ..DHHENKYCDL
Retrocopy IHNNFDIDEVQLDPRALSDVTDEE-VQVDPRKYLDGDREMHLGDPAFDTNYSAEPCWQ*PDHHENKYCDL

Parental  ECSHTCNYKTRSSSYLDNLVWRESEVNHYYEPKLIIDLSNWKEQSKEKSDKKGKSKCERNGLVKAQIALE
          ECSHTCNYKTRS.SYLDNLVWR.SEVN.YYEPKLI.DLSNWKEQSKEKSDKK.KSKCERNGLVKAQI.LE
Retrocopy ECSHTCNYKTRS*SYLDNLVWRGSEVNRYYEPKLITDLSNWKEQSKEKSDKKSKSKCERNGLVKAQIVLE

Parental  EASQQLAGKEREKNQGFDFDSFIAGTIQLSSQHEPTDVVDKLNDLNSSVSQLELKSLISKSVSQEKQEKG
          EASQQLA....EKNQGF.F.SFIAGTIQ.S.QHEPTDVVDKLNDLNSSVSQL.LKSLISKSVSQEKQEKG
Retrocopy EASQQLAXXXXEKNQGFHFHSFIAGTIQFSFQHEPTDVVDKLNDLNSSVSQLQLKSLISKSVSQEKQEKG

Parental  MANLAQLEALYQSSWDSQFVSGGEDCFFINQFCEVRKDEQVEKENT
          MANLAQLE.LY.SSWDSQFV..GE.CF.INQFCEVRKDEQV.KENT
Retrocopy MANLAQLETLYPSSWDSQFVGDGENCFLINQFCEVRKDEQVKKENT

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_2095 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 11 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000000962	1 retrocopy	retro_cjac_2633,
Homo sapiens	ENSG00000069956	2 retrocopies	retro_hsap_1257, retro_hsap_2519,
Gorilla gorilla	ENSGGOG00000004003	1 retrocopy	retro_ggor_1571,
Monodelphis domestica	ENSMODG00000001962	2 retrocopies	retro_mdom_138, retro_mdom_63,
Nomascus leucogenys	ENSNLEG00000006476	2 retrocopies	retro_nleu_1441, retro_nleu_2095 ,
Otolemur garnettii	ENSOGAG00000030786	1 retrocopy	retro_ogar_1827,
Pongo abelii	ENSPPYG00000006482	2 retrocopies	retro_pabe_1853, retro_pabe_3322,
Pan troglodytes	ENSPTRG00000020224	3 retrocopies	retro_ptro_1464, retro_ptro_2743, retro_ptro_3045,
Sarcophilus harrisii	ENSSHAG00000017091	1 retrocopy	retro_shar_445,
Tupaia belangeri	ENSTBEG00000007876	2 retrocopies	retro_tbel_1879, retro_tbel_2946,
Tursiops truncatus	ENSTTRG00000016253	2 retrocopies	retro_ttru_322, retro_ttru_75,