RetrogeneDB ID: retro_ggor_1571

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 21:10815038..10816150(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MAPK6
• Ensembl ID: ENSGGOG00000004003
• Aliases: None
• Description: None

Sequence

>retro_ggor_1571
GCTGTAGACGATGACTGTGATAAAAGAGAATCCATCAAGAAAATTCTCCTTACTGATCCCCAGAGTGTCAAAAATGCTCT
ACATGAAATCAAAATTATTAGAAGATTTGACATCGTGACTTTGTGAAAGTGTTTGAAATTCCTAGTACCAGTGGAAGCCA
ATTAACAAACAATGTGAACTCTCTTACCAAACTTAACAGTATTTACATTTTTCAGAATTACATGGAGACAGACTTGGCTA
ATATGCTAGAGGAGGGCCCTTTACTGGAAAAGCATGCCAGACTTTTCATGTATCAGCTGCTAAGGTGGCTTAAGTATATT
CACTCTGCAAATGTATTGCCCAGATATCTCAAACCAACTAATCTTTTCATTAATACTGAAGACATGATGCTGAAGATAGG
GGACTTTTGTCTTGCACAAATCATGGATCCTCATTATTCCCATAAGGATCATCTTTCTGAAGGACTGGTAACTAAATGGT
ACAGATCTCCACATATTTTACATTCTTCTAATAGTTATAGTAAAGCCATTGACATGTGGGCTGCAGGCCACATCTTTGCT
GAAATGCTGACTGGTAAAACCCTTTTTGCAGGTGCGCGTGAACTCGAACAGATGCAGCTGATTTTAGAATCTAGTCCTGT
TATACATGAGGAAGATCATCAGGAGCTTCTCAGTGTAATTCCAGTTTACATTAGAAATGAAATGACTGAACCACAGAAAC
CTTTAACTCAGCTGCTTCAGGGAATTAGTTGAGAAGCACTGGATCTCCTGGAACAAATTTTGACATTTATCCCTACAGAT
GGGTTAACAGCAGAAGAAGTGCTCTCCCATCATTACATGAGCATATATTATTTTCCAATGGATGAGCCAATTTCAAGTCA
TCTTTTTCATATTGAAGATGAAGTTTATGATATTTTGCTTATGGATGAAACTCACAGTCACATTTATAACTGGGAAAGGT
ATGATTGTTAGTTTTCAGTGCATGATTGGCCTATACATAACAACTTTGATATTGATGAAGTTCTGCTTGACCCAAGGGCT
CTGTCTGATGTCACTGATGAAGAAGTACAAGTTGATCCCTGAAAATATTTGGATGGACATTCGGAAAAGTAT

Alignment

ORF - retro_ggor_1571 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.35 %
• Parental protein coverage: 51.73 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AVDNDCDKRVAIKKIVLTDPQSVKHALREIKIIRRLD-HDNIVKVFEILGPSGSQLTDDVGSLTELNSVY
          AVD.DCDKR..IKKI.LTDPQSVK.AL.EIKIIRR.D.H...VKVFEI...SGSQLT..V.SLT.LNS.Y
Retrocopy AVDDDCDKRESIKKILLTDPQSVKNALHEIKIIRRFD<HRDFVKVFEIPSTSGSQLTNNVNSLTKLNSIY

Parental  IVQEYMETDLANVLEQGPLLEEHARLFMYQLLRGLKYIHSANVLHRDLKPANLFINTEDLVLKIGDFGLA
          I.Q.YMETDLAN.LE.GPLLE.HARLFMYQLLR.LKYIHSANVL.R.LKP.NLFINTED..LKIGDF.LA
Retrocopy IFQNYMETDLANMLEEGPLLEKHARLFMYQLLRWLKYIHSANVLPRYLKPTNLFINTEDMMLKIGDFCLA

Parental  RIMDPHYSHKGHLSEGLVTKWYRSPRLLLSPNNYTKAIDMWAAGCIFAEMLTGKTLFAGAHELEQMQLIL
          .IMDPHYSHK.HLSEGLVTKWYRSP..L.S.N.Y.KAIDMWAAG.IFAEMLTGKTLFAGA.ELEQMQLIL
Retrocopy QIMDPHYSHKDHLSEGLVTKWYRSPHILHSSNSYSKAIDMWAAGHIFAEMLTGKTLFAGARELEQMQLIL

Parental  ESIPVVHEEDRQELLSVIPVYIRNDMTEPHKPLTQLLPGISREALDFLEQILTFSPMDRLTAEEALSHPY
          ES.PV.HEED.QELLSVIPVYIRN.MTEP.KPLTQLL.GIS.EALD.LEQILTF.P.D.LTAEE.LSH.Y
Retrocopy ESSPVIHEEDHQELLSVIPVYIRNEMTEPQKPLTQLLQGIS*EALDLLEQILTFIPTDGLTAEEVLSHHY

Parental  MSIYSFPMDEPISSHPFHIEDEVDDILLMDETHSHIYNWERYHDCQFSEHDWPVHNNFDIDEVQLDPRAL
          MSIY.FPMDEPISSH.FHIEDEV.DILLMDETHSHIYNWERY.DC.FS.HDWP.HNNFDIDEV.LDPRAL
Retrocopy MSIYYFPMDEPISSHLFHIEDEVYDILLMDETHSHIYNWERY-DC*FSVHDWPIHNNFDIDEVLLDPRAL

Parental  SDVTDEEEVQVDPRKYLDGDREKY
          SDVTD.EEVQVDP.KYLDG..EKY
Retrocopy SDVTD-EEVQVDP*KYLDGHSEKY

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain_prefrontal_cortex	0.00 RPM	53.47 RPM
SRP007412_cerebellum	0.00 RPM	52.36 RPM
SRP007412_heart	0.00 RPM	4.38 RPM
SRP007412_kidney	0.00 RPM	30.26 RPM
SRP007412_liver	0.00 RPM	34.79 RPM
SRP007412_testis	0.00 RPM	184.51 RPM

ChIP-Seq

Gorilla gorilla was not studied using ChIP-Seq data.

EST

Gorilla gorilla was not studied using EST data.

TSS

Gorilla gorilla was not studied using FANTOM5 data.

Lab

retro_ggor_1571 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1571 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2519
Pan troglodytes	retro_ptro_1464
Pongo abelii	retro_pabe_1853

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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,