RetrogeneDB ID: retro_ggor_2280

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 5:93979955..93980621(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ITFG2
• Ensembl ID: ENSGGOG00000010482
• Aliases: None
• Description: None

Sequence

>retro_ggor_2280
GACGGAGATGGGTGTTGTGAGTGGTGGTGGGCTACACAGACTGTGTGGTGTGAGCTTTTCACTGGGAGGAGCTAGGTGAG
GGTCCTGAACATCTGACTGGGCAGCTGGTGTCCCTCAAGAAGTGGTTGCTGGAGGGTCAGTTGGACAGCCTCTCAGTGAC
TCTGGGGCCGCTGGGTGTTCCTGAACTGATGGTGTCTTAGTCAGGCTGTGCTTATGCAATTCTAACGTGTATGTGGAAAA
AGGACACAGGGTCCCCTCCTGCCTCTGAAGGGGTCATGGATGGCAGTAGGGAGACCCTAGCTGCCTGAGATGTGGTACTG
CACCAGACATCAGGCCATATCCACAACAAGAATATCTCCACTCACCTAACTGGCAAAAACAAACAAGGCCATGGCACTGA
GAGTAGTGGCTCTGGCATCTTTGCCGTGAGCACACTGGATGGGATGCTGAAGCTCATGGTGGAAGCAGACAAGCTCTTGT
GGTCAGCACAGGTGTCTCACCAGCCCTTCGCCCTGGAGAAATTGGGATGTCACCGGCAATGGGCATGAGGAGGTAGTTGC
ATGTGCCTGCGATGGACAGACGTATATTATTGATCACAATCGCACCGTCGTCTGCTTCTAAGTGGATGAACATATCTGTG
CCTTCTGTGCAGGCCTGTATGCCTGC

Alignment

ORF - retro_ggor_2280 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.26 %
• Parental protein coverage: 50.34 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  DGDGCRE-LVVGYTDRVVRAFRWEELGEGPEHLTGQLVSLKKWMLEGQVDSLSVTLGPLGLPELMVSQPG
          DGDGC.E..VVGYTD.VV.AF.WEELGEGPEHLTGQLVSLKKW.LEGQ.DSLSVTLGPLG.PELMVS..G
Retrocopy DGDGCCE<VVVGYTDCVV*AFHWEELGEGPEHLTGQLVSLKKWLLEGQLDSLSVTLGPLGVPELMVS*SG

Parental  CAYAILLCTWKKDTGSPPASEGPMDGSRETPAARDVVLHQTSGRIHNKNVSTHLIGNIKQGHGTESSGSG
          CAYAIL.C.WKKDTGSPPASEG.MDGSRET.AA.DVVLHQTSG.IHNKN.STHL.G..KQGHGTESSGSG
Retrocopy CAYAILTCMWKKDTGSPPASEGVMDGSRETLAA*DVVLHQTSGHIHNKNISTHLTGKNKQGHGTESSGSG

Parental  LFALCTLDGTLKLMEEMEEADKLLWSVQVDHQLFALEKL-DVTGNGHEEVVACAWDGQTYIIDHNRTVVR
          .FA..TLDG.LKLM.E...ADKLLWS.QV.HQ.FALEKL.DVTGNGHEEVVACA.DGQTYIIDHNRTVV.
Retrocopy IFAVSTLDGMLKLMVE---ADKLLWSAQVSHQPFALEKL>DVTGNGHEEVVACACDGQTYIIDHNRTVVC

Parental  FQVDENIRAFCAGLYAC
          F.VDE.I.AFCAGLYAC
Retrocopy F*VDEHICAFCAGLYAC

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	13.86 RPM
SRP007412_cerebellum	0.00 RPM	30.45 RPM
SRP007412_heart	0.00 RPM	6.79 RPM
SRP007412_kidney	0.00 RPM	21.92 RPM
SRP007412_liver	0.00 RPM	14.22 RPM
SRP007412_testis	0.00 RPM	12.54 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_2280 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2280 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3365
Pongo abelii	retro_pabe_2768

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000111203	1 retrocopy	retro_hsap_3365,
Gorilla gorilla	ENSGGOG00000010482	1 retrocopy	retro_ggor_2280 ,
Pongo abelii	ENSPPYG00000004150	1 retrocopy	retro_pabe_2768,