RetrogeneDB ID: retro_ggor_1595

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 22:9651290..9652349(+)
• Located in intron of: ENSGGOG00000004757

Retrocopy information

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

Parental gene information

• Parental gene symbol: FYN
• Ensembl ID: ENSGGOG00000008065
• Aliases: None
• Description: None

Sequence

>retro_ggor_1595
ACTAAAGGTGCTTATTCCCTCTCTATTCGTGATTGGGATGAGGTAAGGGGTGACAATGTGAAACACCACAAAATTAGGAA
ACTTGACAATGGTAGATACTATATCACAACCAGAGAACAATTTGATACTCTGCAGAAATTGGCAAAACACTACACAGAAC
ATGCTGATGGTTTATGCTACAAGTTAATAACTATGTGTCCAACTGTGAAACCTCAGATTCAAGGTCTAGCAAAAGATGCT
TGGGAAATCCCTTGATAATCTTTGCGACTAGAGGTTAAACTAGGACAAGGATGTTTTGGCAAAGTGTGGATGGGAATATG
GAATGGAACCACAAAAGTAGCAATCAAAACACTAAAACCAGGTACAATGATGCCAGAAGCTTTTCTTCAAGAAGCTCAGG
TAATGAAAAAAATAAGACATGGTAAACTTGTTCCACTATATGCTGTTGTTTCTGAAGAGCCAATTTACATTGTCACTGAA
TTGATGTCAAAAGGAAGCTTATTCAATTTCCTTAAGGAAGGAGATGGAAAGTATTTGAAGCTTCCACAAATGGTTGATAT
GGCTGCTCAGATTGCTGATGGTATGGCATATATTGAAAGAATGAACTATATTCACCGAGATCTCTGGGCTGCTAATATTC
TTGTAGGAGAAAATCTTCTGTGCAAAATAGCAGATTTTGGTTTAGCAAGGTTAATTGAAGACAATGAATACACATCAAGA
CAAGGTGCAGAATTTCCAATCAAATGGACAGCTCCTGAAGTTGCACTGTATGGTGGGTTTACAATAAAGTCTGATGTCTG
CTCATTTGGAATTCTACAGACAGAACTGGTGACAAAGGGCAGAGTGCCATATCCAGGTATGGTGAACCATGAAGTACTGG
AACAGGTGGAGCGAGGATACAGGATGCCTTGCCCTCAGGGCTGTCCAGAATCCCTCCATGAATTGATGAATCTGTGTTGG
AAGAAGGACCCTGATGAAAGACCAACATTTGAATATATTCAGTCCTTCTTGGGAGACTACTTCACTGCTACAGAGCCATA
GTACCAGCCAGGAGAAAAC

Alignment

ORF - retro_ggor_1595 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.4 %
• Parental protein coverage: 66.17 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TKGAYSLSIRDWDDMKGDHVKHYKIRKLDNGGYYITTRAQFETLQQLVQHYSERAAGLCCRLVVPCHKGM
          TKGAYSLSIRDWD...GD.VKH.KIRKLDNG.YYITTR.QF.TLQ.L..HY.E.A.GLC..L...C....
Retrocopy TKGAYSLSIRDWDEVRGDNVKHHKIRKLDNGRYYITTREQFDTLQKLAKHYTEHADGLCYKLITMCPTVK

Parental  PRLTDLSVKTKDVWEIPRESLQLIKRLGNGQFGEVWMGTWNGNTKVAIKTLKPGTMSPESFLEEAQIMKK
          P....L....KD.WEIP..SL.L...LG.G.FG.VWMG.WNG.TKVAIKTLKPGTM.PE.FL.EAQ.MKK
Retrocopy PQIQGLA---KDAWEIP**SLRLEVKLGQGCFGKVWMGIWNGTTKVAIKTLKPGTMMPEAFLQEAQVMKK

Parental  LKHDKLVQLYAVVSEEPIYIVTEYMNKGSLLDFLKDGEGRALKLPNLVDMAAQVAAGMAYIERMNYIHRD
          ..H.KLV.LYAVVSEEPIYIVTE.M.KGSL..FLK.G.G..LKLP..VDMAAQ.A.GMAYIERMNYIHRD
Retrocopy IRHGKLVPLYAVVSEEPIYIVTELMSKGSLFNFLKEGDGKYLKLPQMVDMAAQIADGMAYIERMNYIHRD

Parental  LRSANILVGNGLICKIADFGLARLIEDNEYTARQGAKFPIKWTAPEAALYGRFTIKSDVWSFGILLTELV
          L..ANILVG..L.CKIADFGLARLIEDNEYT.RQGA.FPIKWTAPE.ALYG.FTIKSDV.SFGIL.TELV
Retrocopy LWAANILVGENLLCKIADFGLARLIEDNEYTSRQGAEFPIKWTAPEVALYGGFTIKSDVCSFGILQTELV

Parental  TKGRVPYPGMNNREVLEQVERGYRMPCPQDCPISLHELMIHCWKKDPEERPTFEYLQSFLEDYFTATEPQ
          TKGRVPYPGM.N.EVLEQVERGYRMPCPQ.CP.SLHELM..CWKKDP.ERPTFEY.QSFL.DYFTATEP.
Retrocopy TKGRVPYPGMVNHEVLEQVERGYRMPCPQGCPESLHELMNLCWKKDPDERPTFEYIQSFLGDYFTATEP*

Parental  YQPGEN
          YQPGEN
Retrocopy YQPGEN

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	1.63 RPM	112.88 RPM
SRP007412_cerebellum	2.09 RPM	77.54 RPM
SRP007412_heart	0.72 RPM	15.17 RPM
SRP007412_kidney	7.36 RPM	19.99 RPM
SRP007412_liver	3.43 RPM	19.20 RPM
SRP007412_testis	6.84 RPM	30.04 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_1595 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1595 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012780	2 retrocopies	retro_chof_1165, retro_chof_763,
Gorilla gorilla	ENSGGOG00000008065	1 retrocopy	retro_ggor_1595 ,