RetrogeneDB ID: retro_ggor_2608

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 7:73548243..73549296(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RUSC1
• Ensembl ID: ENSGGOG00000000408
• Aliases: None
• Description: None

Sequence

>retro_ggor_2608
GGAAACCAGAAATCAGATGTTTATGCCCAAGAAAAGCAGGATTTCGTTCAGCACTACTCCCAGATCGTTAGGGTGCTGAC
TGAGGATGAGATGGGGCACCCAGAGACAGGAGATGCTACTGCCCGGCTCAAGGAAGTCCTGGAGTACAATGCCATTGGAG
GCAAGTATCACCGAGGTTTGATGGTGCTAGTAGCGTTCCGGGAGCTGGTGGAGCCGAGGAAACAGGATGCTGATAGTCTC
CAGTGGGCACTGACTGTGGGCTGGTATGCGGAACTGCTGCAAGCTTTCTTCCTGGTGGCAGATGACATTATGGATTCATC
CCTTACCTGCCAGGGACAGATCTCCTGGTATCAGAAGCTGGGCATGGGTTTGGATGCCATCAATGATGCTATCCTTCTGG
AAGCATGTATCTACTGCCTGCTGAAGCTGTATTGCCGGGAGCAGCCCTATTACCTAAACCTGATGGAGCTCTTCCAGCAG
AATTCTTATCAGACTGAGATTGGGCAGACCCTCGACCTCATCACAACCCCCCAGGGCAATGTGGATCTTCGCAGATGCAC
CGAAAAAAGGCACAAATCTGTTGTCAAGTACAAGACAGCTTTCTACTCCTTCTACCTTCCTGTAGCTGCAGCCATGTACA
TGTCAAGAATGGATGACAAGAAGGAGCACACCAGTGCCAAGAAGATCCTGCTGGAGATTCAAGAGTTCTTTCAGATTCAG
GATGATTACCTTGACTTCTTTGGGGACCCCAGTGTGACTGGCAGAGTTGGCAATGACTTCCAGGACAATAAATGCAGCTG
GCTGGTGGTTCAGTGTCTGCTACAGGCCACTCCAGAACAGTACCAGATCCTGAAGGAAAATTACAGGCAGAAGGAGGCCG
AGAAGGTGGCCCAGGTGAAGGCACTATACGAGGAGCTGGATCTGCCAGCCGTGTTCTTGCAGTATGAGAAAGACAGTTAC
AGCCACGTTATGGGTCTCATCGAATAGTACGCAGAGCCCCTGCCCCCAGCCATCTTTCTGGGGCTTGTGCACAAAATCTA
CAAGTGGAAAAAG

Alignment

ORF - retro_ggor_2608 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.76 %
• Parental protein coverage: 83.77 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GDQNSDVYAQEKQDFVQHFSQIVRVLTEDEMGHPEIGDAIARLKEVLEYNAIGGKYNRGLTVVVAFRELV
          G.Q.SDVYAQEKQDFVQH.SQIVRVLTEDEMGHPE.GDA.ARLKEVLEYNAIGGKY.RGL.V.VAFRELV
Retrocopy GNQKSDVYAQEKQDFVQHYSQIVRVLTEDEMGHPETGDATARLKEVLEYNAIGGKYHRGLMVLVAFRELV

Parental  EPRKQDADSLQRAWTVGWCVELLQAFFLVADDIMDSSLTRRGQICWYQKPGVGLDAINDANLLEACIYRL
          EPRKQDADSLQ.A.TVGW..ELLQAFFLVADDIMDSSLT..GQI.WYQK.G.GLDAINDA.LLEACIY.L
Retrocopy EPRKQDADSLQWALTVGWYAELLQAFFLVADDIMDSSLTCQGQISWYQKLGMGLDAINDAILLEACIYCL

Parental  LKLYCREQPYYLNLIELFLQSSYQTEIGQTLDLLTAPQGNVDLVRFTEKRYKSIVKYKTAFYSFYLPIAA
          LKLYCREQPYYLNL.ELF.Q.SYQTEIGQTLDL.T.PQGNVDL.R.TEKR.KS.VKYKTAFYSFYLP.AA
Retrocopy LKLYCREQPYYLNLMELFQQNSYQTEIGQTLDLITTPQGNVDLRRCTEKRHKSVVKYKTAFYSFYLPVAA

Parental  AMYMAGIDGEKEHANAKKILLEMGEFFQIQDDYLDLFGDPSVTGKIGTDIQDNKCSWLVVQCLQRATPEQ
          AMYM...D..KEH..AKKILLE..EFFQIQDDYLD.FGDPSVTG..G.D.QDNKCSWLVVQCL..ATPEQ
Retrocopy AMYMSRMDDKKEHTSAKKILLEIQEFFQIQDDYLDFFGDPSVTGRVGNDFQDNKCSWLVVQCLLQATPEQ

Parental  YQILKENYGQKEAEKVARVKALYEELDLPAVFLQYEEDSYSHIMALIEQYAAPLPPAVFLGLARKIYKRR
          YQILKENY.QKEAEKVA.VKALYEELDLPAVFLQYE.DSYSH.M.LIE.YA.PLPPA.FLGL..KIYK..
Retrocopy YQILKENYRQKEAEKVAQVKALYEELDLPAVFLQYEKDSYSHVMGLIE*YAEPLPPAIFLGLVHKIYKWK

Parental  K
          K
Retrocopy K

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	0.05 RPM	147.46 RPM
SRP007412_cerebellum	0.28 RPM	128.56 RPM
SRP007412_heart	0.03 RPM	34.43 RPM
SRP007412_kidney	0.33 RPM	103.20 RPM
SRP007412_liver	0.26 RPM	119.84 RPM
SRP007412_testis	1.45 RPM	91.48 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_2608 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2608 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

Parental genes homology involve 1 parental gene, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000000408	4 retrocopies	retro_ggor_1162, retro_ggor_1184, retro_ggor_1185, retro_ggor_2608 ,