RetrogeneDB ID: retro_ggor_2048

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 4:96367490..96368147(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPL19
• Ensembl ID: ENSGGOG00000027896
• Aliases: None
• Description: None

Sequence

>retro_ggor_2048
AAGTTCTTGAGTCCCTAATTCATTCCTCCAAGGGGAAGAATAAATCCTCTGAAGTTTCAAATAGGAAGAAAAGTTATGTT
AGAAAGGAGAAAAGTACTCCACATTCCAGAGTTCTATGTTGGAAGTATTCTTTGTGTTACTACAGCTGACTCATATGCCA
GTGAAAAAATCAGCCAGTTTCTGGGGATTTGCATCTAGAGATCAGGAAAAGGACTTAGGGCTACTTTTATCCTTAGGAAT
GTTATTGAAGGACAAGGTGTTAAGATTTGCTTTGAACTTTATAATCCTCGAATCCGGGAGACTCAAGTGGTCAAATTAGA
GAAATGGGTGGATGATAGCTTGCTGTGGTTATGAGATGCTTTTCCTGAATATAGCACTGTTGATGTGAATATGAAGCCAG
TAGCACAAAAGCCTAGCCAAGAAGTTCCTGTTAATAAGCTGAAAGTGAAAATGAAGCCTCAGCCCTTGTCCAAATGCTGG
GACTGTCCAAATTTTAATATTTAAGGAATAATATTTGATCCTTGTTTCACTGAAGAACAAATGAAAGCAGCTTAGAAGTA
GAGACAGCTGTGGCTTGAATTTGATACGATGAGGGAATATGATGCTTTAAAAATTGAAGCTGCAATATGGGATGAAATTG
AAGCATCCAGAAAGTCC

Alignment

ORF - retro_ggor_2048 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.63 %
• Parental protein coverage: 75.0 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RFLSPEFIPRRGRTDPLKFQIERKDMLERRKVLHIPEFYVGSILRVTTADPYASGKISQFLGICIQRSGR
          .FLSP.FIP.RGR..PLKFQI.RK.MLERRKVLHIPEFYVGSIL.VTTAD.YAS.KISQFLGICI.RSG.
Retrocopy KFLSP*FIPPRGRINPLKFQIGRKVMLERRKVLHIPEFYVGSILCVTTADSYASEKISQFLGICI*RSGK

Parental  GLGATFILRNVIEGQGVEICFELYNPRVQEIQVVKLEKRLDDSLLYLRDALPEYSTFDVNMKPVVQEPNQ
          GL.ATFILRNVIEGQGV.ICFELYNPR..E.QVVKLEK..DDSLL.L.DA.PEYST.DVNMKPV.Q.P.Q
Retrocopy GLRATFILRNVIEGQGVKICFELYNPRIRETQVVKLEKWVDDSLLWL*DAFPEYSTVDVNMKPVAQKPSQ

Parental  KVPVNELKVKMKPKPWSKRWERPNFNIKGIRFDLCLTEQQMKEAQKWNQPWLEFDMMREYDTSKIEAAIW
          .VPVN.LKVKMKP.P.SK.W..PNFNI.GI.FD.C.TE.QMK.A.K..Q.WLEFD.MREYD..KIEAAIW
Retrocopy EVPVNKLKVKMKPQPLSKCWDCPNFNI*GIIFDPCFTEEQMKAA*K*RQLWLEFDTMREYDALKIEAAIW

Parental  KEIEASKRS
          .EIEAS..S
Retrocopy DEIEASRKS

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	7.58 RPM
SRP007412_cerebellum	0.00 RPM	4.73 RPM
SRP007412_heart	0.00 RPM	3.69 RPM
SRP007412_kidney	0.00 RPM	21.06 RPM
SRP007412_liver	0.00 RPM	14.19 RPM
SRP007412_testis	0.00 RPM	30.46 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_2048 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2048 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2957
Pan troglodytes	retro_ptro_2002
Pongo abelii	retro_pabe_2453

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000002266	1 retrocopy	retro_eeur_485,
Homo sapiens	ENSG00000115364	1 retrocopy	retro_hsap_2957,
Gorilla gorilla	ENSGGOG00000027896	1 retrocopy	retro_ggor_2048 ,
Loxodonta africana	ENSLAFG00000000146	1 retrocopy	retro_lafr_472,
Myotis lucifugus	ENSMLUG00000012774	1 retrocopy	retro_mluc_1308,
Pongo abelii	ENSPPYG00000012255	1 retrocopy	retro_pabe_2453,
Pan troglodytes	ENSPTRG00000012108	1 retrocopy	retro_ptro_2002,
Ictidomys tridecemlineatus	ENSSTOG00000002873	1 retrocopy	retro_itri_549,
Tupaia belangeri	ENSTBEG00000016470	1 retrocopy	retro_tbel_326,