RetrogeneDB ID: retro_ggor_3025

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: X:64962827..64963334(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BMI1
• Ensembl ID: ENSGGOG00000025243
• Aliases: None
• Description: None

Sequence

>retro_ggor_3025
ATGCATTGAACAATCGAAGTCAAAGTCACTGAGCTAAATCCCCACTTAATGTGTGTGCTTTGTGGAGGATACTTAATTGA
TGCCAGAACCATAATAGAATATCTGCATTCCTTCTTTGAAACCTGTATTTCGTGTTACCTATAGATCAGCAAATATTGTC
CTTTAATGTCCAAGTTCACAAAACCATTATGCTCTGAATATAACATCAGATAAAAATCCTCAATCTATTGTATACAATTA
CTTCCAGGCCTTTTCAAAAATAAAATGAGAAGGGATCTTTATGCATCTCTTTATTCAGCTGTTGCTGCCAATGGCTCTAA
TGAAAATAGAGAAGTTGCAGATGAAGAGAAGATAATTATAACTGATGATGAAACAATAAGCTTATACATTGGATTTTTTT
TTTGACCAGAACAGAAAGTAAACAAAGACAAAGAGAAGTTTAAGGAGGAGGTGAATGATAAAAGTTATTTACAATGCTCA
GCCAGAATGACTGTGATGAACCTAAGG

Alignment

ORF - retro_ggor_3025 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.95 %
• Parental protein coverage: 53.99 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MHRTTRIKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIR
          MH.T...K.TELNPHLMCVLCGGY.IDA.TIIE.LHSF..TCI..YL..SKYCP.............NIR
Retrocopy MH*TIEVKVTELNPHLMCVLCGGYLIDARTIIEYLHSFFETCISCYL*ISKYCPLMSKFTKPLCSEYNIR

Parental  SDKTLQDIVYKLVPGLFKNEMKRRRDFYAAHPSADAANGSNEDRGEVADEDKRIITDDEIISLSIEFFDQ
          .......I...L.PGLFKN.M..RRD.YA...SA.AANGSNE.R.EVADE.K.IITDDE.ISL.I.....
Retrocopy *KSSIYCI--QLLPGLFKNKM--RRDLYASLYSAVAANGSNENR-EVADEEKIIITDDETISLYIGXXXX

Parental  NRLDRKVNKDKEKSKEEVNDKRYLRCPAAMTVMHLR
          ........K.K...KEEVNDK.YL.C.A.MTVM.LR
Retrocopy PEQKVNKDKEK--FKEEVNDKSYLQCSARMTVMNLR

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	28.63 RPM
SRP007412_cerebellum	0.00 RPM	32.74 RPM
SRP007412_heart	0.00 RPM	3.56 RPM
SRP007412_kidney	0.00 RPM	31.81 RPM
SRP007412_liver	0.00 RPM	22.98 RPM
SRP007412_testis	0.00 RPM	49.31 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_3025 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_3025 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000011962	1 retrocopy	retro_chof_709,
Callithrix jacchus	ENSCJAG00000036548	1 retrocopy	retro_cjac_2437,
Cavia porcellus	ENSCPOG00000015427	2 retrocopies	retro_cpor_1209, retro_cpor_546,
Gorilla gorilla	ENSGGOG00000025243	1 retrocopy	retro_ggor_3025 ,
Loxodonta africana	ENSLAFG00000016845	1 retrocopy	retro_lafr_591,
Macaca mulatta	ENSMMUG00000000881	1 retrocopy	retro_mmul_2591,
Mus musculus	ENSMUSG00000026739	1 retrocopy	retro_mmus_3710,
Oryctolagus cuniculus	ENSOCUG00000005420	1 retrocopy	retro_ocun_489,
Tupaia belangeri	ENSTBEG00000015631	1 retrocopy	retro_tbel_2369,