RetrogeneDB ID: retro_ggor_1916

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 3:15001676..15003617(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSG00000007384
• Ensembl ID: ENSGGOG00000028110
• Aliases: None
• Description: None

Sequence

>retro_ggor_1916
AAGCGAGAGTTGGTGGCCAAGATGAGCTTCCATGCAGCCGCAGCACTGATGAAAGGCTGCTCGATTGGGGATGGCACCTT
GCGCCGGGCACAGCGTCGAAGCTCCACTCCAGCCAGCTTTCTGGCGGAAAACACGAATTTCCCTGATGAGATGGACACAT
CCTTCTTTGCCCAGGAAGGTATCCTCCATGAAGAGCTGTCCACATACCCGGACGAAGTTTTTGAGTCCCCATCAGAGGCA
GCACTCAAGGACTGGGAGAAGGCACCGGAGCAGGAGTACCTCACTGGCAGGGCCCTGGACCGCAGTGAGCTTGAGCGCAG
CCACCTGATGCTGCCTTTGGAGCGAGGCTGGCGGAAGCAGGAAGACACCGCAGCCTCGCACCCCAAGGTGCGGCTCCGAC
AGGAGATGGTGAGCACCGCGGGGCCGCGGCGGAACCAGCGCATCGCTGTGCCGGTGCGCAAGCTCTTCGCCCGGGAGAAG
CGGCTGTATGGGCTGAGCATGGTGGGACGGCTCACCAACCACACCTACCACAAGCACATCGACAGCTTCGTCAAGCGACA
GATCGAGGACATGGACAGCCACAGGCCCTTCTTCACCCACTGGCTCACCTTCGTGCACTTGCTCATCACCATTCTAGCCG
TGTGCATCTATGGCATCGTGCCCGTGGACTTCTCACAGCATGAAACGGTGGACTCGATGCTGTGGAACCACTGGGTCTAC
GAGAACGTCAAGTACGTGCAGCAGGAGAACTTCTGGATCGGGCCCAGCTCGGAGGCCCTCATCCACCTGGGTGCCAAGTT
TTCGCCTTGCATATGCCAGGATCCGCAGGTGCACAGCTTCATTCGCGCAGGGCGCGAGCACGAGAAGCACTCGGCCTGCT
GCATGCACAACGACAGGTCGGGCTGCCTGCAGACCTCGGAGGAGGAGTGCTCGCCCATGCTGGCAATGTGGGTGAAGTGA
CCCATCCATTCCAGCGCCCCAGAGCTTGCCGGCCACAAGAGACAGTTTGGCTCTGTCTGCCACCAGGATCCCAGGGTATA
TGATGAGCCCTCCTGGGAAGACCCCCGTGAGTGGCCAGAAGACATCACCAAGTGGCCGATCTGCACCAGAAACAACCCCG
AGAACCACACCAACCTTCCCCACATGGACTGTGTCATCACAGGACGGCCCTGCTGCATTGGCACCAACGGCGAGTGTGAG
ATCACCTCCCGGGAGTACTGTGACTTCATGAGGGGCTATTTCCATGAGGAGGCCACGCTCTGCTCTCAGGTGCACTGCAT
GGATGATGTGTGTGGGCTCCTCCCTTTCCTCAACCCTGAGGTGCCTGACCAGTTCTACCGCCTGTGGCTGTCCCTCTTCC
TGCACACCAGGATCCTGCACTACCTGGTGTCCATATGCTTCCAGATGACCGTCCCGCGGGACCTGGAGAAGCTGGCAGGG
TGGCACCACATAGCCATCATCTACCTGCTGAGTGGTGTCACTGGCAACCTGGCCAGTGCCATCTTCCTGCTGTACTGAGC
AGAGGTGGTTCCTGCTGGCTCCCAGCTTGGCATCCTGGCCTGCCTCTTCGTGGAGCTCTTCCAGAGCTGGCAGATCCTGG
AGCGGCCCTGGCATGCCTTCTTCAAGCTGCTGGCTGTGGTGCTCTTCCTCTGTACCTTTGAGCTGCTGCCCTGGATCGAC
AACTTTGCCCACATTTCGGGGTTCATCAGTGGCCTCTTTCTCTCCTTTGCCTTCTAGCGCTACATCAGCTTCAGCAAGTT
CCATCTGTACTGGAAATGCTGCCTGGTCATCATCTTTCAGGTGGTCTTCCTGGGCCTCCTGGCTGGCCTGGTGGTCCTCT
TCTACTTCTATCCTGTCTGCTGTGAGTGGTGTGAGCTCCTCACCTGCATCCCCTTCACTGATAATTTCTGCGAGAAGTAC
CAACTGGATGCTCAGCTCCAC

Alignment

ORF - retro_ggor_1916 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.59 %
• Parental protein coverage: 75.91 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KRESVAKMSFRAAAALMKGRSVRDGTFRRAQRRSFTPASFLEEDTTDFPDELDTSFFAREGILHEELSTY
          KRE.VAKMSF.AAAALMKG.S..DGT.RRAQRRS.TPASFL.E.T..FPDE.DTSFFA.EGILHEELSTY
Retrocopy KRELVAKMSFHAAAALMKGCSIGDGTLRRAQRRSSTPASFLAENT-NFPDEMDTSFFAQEGILHEELSTY

Parental  PDEVFESPSEAALKDWEKAPEQADLTGGALDRSELERSHLMLPLERGWRKQKEGAAAPQPKVRLRQEVVS
          PDEVFESPSEAALKDWEKAPEQ..LTG.ALDRSELERSHLMLPLERGWRKQ.E..AA..PKVRLRQE.VS
Retrocopy PDEVFESPSEAALKDWEKAPEQEYLTGRALDRSELERSHLMLPLERGWRKQ-EDTAASHPKVRLRQEMVS

Parental  TAGPRRGQRIAVPVRKLFAREKRPYGLGMVGRLTNRTYRKRIDSFVKRQIEDMDDHRPFFTYWLTFVHSL
          TAGPRR.QRIAVPVRKLFAREKR.YGL.MVGRLTN.TY.K.IDSFVKRQIEDMD.HRPFFT.WLTFVH.L
Retrocopy TAGPRRNQRIAVPVRKLFAREKRLYGLSMVGRLTNHTYHKHIDSFVKRQIEDMDSHRPFFTHWLTFVHLL

Parental  VTILAVCIYGIAPVGFSQHETVDSVLRNRGVYENVKYVQQENFWIGPSSEALIHLGAKFSPCMRQDPQVH
          .TILAVCIYGI.PV.FSQHETVDS.L.N..VYENVKYVQQENFWIGPSSEALIHLGAKFSPC..QDPQVH
Retrocopy ITILAVCIYGIVPVDFSQHETVDSMLWNHWVYENVKYVQQENFWIGPSSEALIHLGAKFSPCICQDPQVH

Parental  SFIRSAREREKHSACCVRNDRSGCVQTSEEECSSTLAVWVKWPIHPSAPELAGHKRQFGSVCHQDPRVCD
          SFIR..RE.EKHSACC..NDRSGC.QTSEEECS..LA.WVK.PIH.SAPELAGHKRQFGSVCHQDPRV.D
Retrocopy SFIRAGREHEKHSACCMHNDRSGCLQTSEEECSPMLAMWVK*PIHSSAPELAGHKRQFGSVCHQDPRVYD

Parental  EPSSEDPHEWPEDITKWPICTKNSAGNHTNHPHMDCVITGRPCCIGTKGRCEITSREYCDFMRGYFHEEA
          EPS.EDP.EWPEDITKWPICT.N...NHTN.PHMDCVITGRPCCIGT.G.CEITSREYCDFMRGYFHEEA
Retrocopy EPSWEDPREWPEDITKWPICTRNNPENHTNLPHMDCVITGRPCCIGTNGECEITSREYCDFMRGYFHEEA

Parental  TLCSQVHCMDDVCGLLPFLNPEVPDQFYRLWLSLFLHAGILHCLVSICFQMTVLRDLEKLAGWHRIAIIY
          TLCSQVHCMDDVCGLLPFLNPEVPDQFYRLWLSLFLH..ILH.LVSICFQMTV.RDLEKLAGWH.IAIIY
Retrocopy TLCSQVHCMDDVCGLLPFLNPEVPDQFYRLWLSLFLHTRILHYLVSICFQMTVPRDLEKLAGWHHIAIIY

Parental  LLSGVTGNLASAIFLPYRAEVGPAGSQFGILACLFVELFQSWQILARPWRAFFKLLAVVLFLFTFGLLPW
          LLSGVTGNLASAIFL.Y.AEV.PAGSQ.GILACLFVELFQSWQIL.RPW.AFFKLLAVVLFL.TF.LLPW
Retrocopy LLSGVTGNLASAIFLLY*AEVVPAGSQLGILACLFVELFQSWQILERPWHAFFKLLAVVLFLCTFELLPW

Parental  IDNFAHISGFISGLFLSFAFLPYISFGKFDLYRKRCQIIIFQVVFLGLLAGLVVLFYVYPVRCEWCEFLT
          IDNFAHISGFISGLFLSFAF..YISF.KF.LY.K.C..IIFQVVFLGLLAGLVVLFY.YPV.CEWCE.LT
Retrocopy IDNFAHISGFISGLFLSFAF*RYISFSKFHLYWKCCLVIIFQVVFLGLLAGLVVLFYFYPVCCEWCELLT

Parental  CIPFTDKFCEKYELDAQLH
          CIPFTD.FCEKY.LDAQLH
Retrocopy CIPFTDNFCEKYQLDAQLH

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	0.00 RPM
SRP007412_cerebellum	0.00 RPM	0.00 RPM
SRP007412_heart	0.00 RPM	0.00 RPM
SRP007412_kidney	0.08 RPM	0.00 RPM
SRP007412_liver	0.00 RPM	0.00 RPM
SRP007412_testis	0.21 RPM	0.00 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_1916 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1916 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2754
Pan troglodytes	retro_ptro_1862

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000007384	1 retrocopy	retro_hsap_2754,
Gorilla gorilla	ENSGGOG00000028110	1 retrocopy	retro_ggor_1916 ,
Pongo abelii	ENSPPYG00000006895	1 retrocopy	retro_pabe_2280,
Pan troglodytes	ENSPTRG00000007527	1 retrocopy	retro_ptro_1862,