RetrogeneDB ID: retro_ggor_1846

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 3:47251596..47252455(+)
• Located in intron of: ENSGGOG00000028177

Retrocopy information

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

Parental gene information

• Parental gene symbol: NRBF2
• Ensembl ID: ENSGGOG00000013016
• Aliases: None
• Description: None

Sequence

>retro_ggor_1846
ATGAAAGTAATGGAAGGACCCCTCAACCTGGCTCATCAACAGAGCAGACGAGCAGACCATTTATTAGCTGCAGGCAAATA
CGAAGAGGCTATTTCTTGTCACAAAAAGGCTGCAGCATATCTTTCTGAAGCCATGAAGCTGACACAATCTGAGCAGGCTC
GTCTTTCACTGGAATTGCAAAGGGATAGCCACACGAAACAGCTCCTCCTCATCCAAGAGAGATGGAAAAGGGCCCAGCGT
GAGGAAAGATTGAAAGCCTAGCAGAACACAGACAAGGATGTAGCTGCCCATCTTCAGGCATCTCACAAACTCTCTGCCGA
GGATGCGGAGGGCCAGAGCCCCCTTTCTCAGAAGTACAGCCCTTCTTCAGAGAAACGCCTGCCTGAGATTCAGGGGATCT
TTGACAGGGATGCAGACACACTACTATATTTACTTCAGCAAAAGAGTGAGCCAGCAGAAGCCATGTATTGGAAGCAAAGC
CCCAGAAGATGATAAAACAATTATAGAGGAGCAGGCAACCAAAATTGCAGATTTGAAGAGGCATGTGGAATTCCTTGTGG
CTGAGAATGAAAGATTAAGGAAAGAAAATAACTAAAGGCTGAAAAGGCCAGACTTCTAAAAAGGTCCAGTAGAAAAAGAG
CTGGATGTAGATGCTGATTTTGTAGAAACGTCAGAATTACGGAGCTTGCCGCCACATTCAGAAACTGCTACAGCCTCCTC
AACTTGGCAGAAGTTTGCAGCAAATGCCGGGAAAGCCAAGGACATTCCAATCCCCAGTCTTCCTCCCTTGGATTTTACAT
CTCCAGAACTTCCCCTTATGGATCTCCCTGAGAATATTCTGAAAGGATTTATGAATAAT

Alignment

ORF - retro_ggor_1846 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.24 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MEVMEGPLNLAHQQSRRADRLLAAGKYEEAISCHKKAAAYLSEAMKLTQSEQAHLSLELQRDSHMKQLLL
          M.VMEGPLNLAHQQSRRAD.LLAAGKYEEAISCHKKAAAYLSEAMKLTQSEQA.LSLELQRDSH.KQLLL
Retrocopy MKVMEGPLNLAHQQSRRADHLLAAGKYEEAISCHKKAAAYLSEAMKLTQSEQARLSLELQRDSHTKQLLL

Parental  IQERWKRAQREERLKAQQNTDKDVAAHLQTSHKPSAEDAEGQSPLSQKYSPSTEKCLPEIQGIFDRDPDT
          IQERWKRAQREERLKA.QNTDKDVAAHLQ.SHK.SAEDAEGQSPLSQKYSPS.EK.LPEIQGIFDRD.DT
Retrocopy IQERWKRAQREERLKA*QNTDKDVAAHLQASHKLSAEDAEGQSPLSQKYSPSSEKRLPEIQGIFDRDADT

Parental  LLYLLQQKSEPAE-PCIGSKAPKDDKTIIEEQATKIADLKRHVEFLVAENERLRKENKQLKAEKARLLKG
          LLYLLQQKSEPAE.PCIGSKAP.DDKTIIEEQATKIADLKRHVEFLVAENERLRKEN...........KG
Retrocopy LLYLLQQKSEPAE>PCIGSKAPEDDKTIIEEQATKIADLKRHVEFLVAENERLRKEN-N*RLKRPDF*KG

Parental  PIEKELDVDADFVETSELWSLPPHSETATASSTWQKFAANTGKAKDIPIPNLPPLDFPSPELPLMELSED
          P.EKELDVDADFVETSEL.SLPPHSETATASSTWQKFAAN.GKAKDIPIP.LPPLDF.SPELPLM.L.E.
Retrocopy PVEKELDVDADFVETSELRSLPPHSETATASSTWQKFAANAGKAKDIPIPSLPPLDFTSPELPLMDLPEN

Parental  ILKGFMNN
          ILKGFMNN
Retrocopy ILKGFMNN

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	14.43 RPM
SRP007412_cerebellum	0.00 RPM	9.06 RPM
SRP007412_heart	0.00 RPM	2.03 RPM
SRP007412_kidney	0.00 RPM	8.34 RPM
SRP007412_liver	0.00 RPM	15.22 RPM
SRP007412_testis	0.83 RPM	13.88 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_1846 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1846 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 13 parental genes, and 26 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000004648	3 retrocopies	retro_chof_1032, retro_chof_2250, retro_chof_2568,
Homo sapiens	ENSG00000148572	3 retrocopies	retro_hsap_2643, retro_hsap_3999, retro_hsap_433,
Gorilla gorilla	ENSGGOG00000013016	2 retrocopies	retro_ggor_1846 , retro_ggor_2685,
Macropus eugenii	ENSMEUG00000010849	3 retrocopies	retro_meug_1385, retro_meug_2049, retro_meug_671,
Macaca mulatta	ENSMMUG00000017726	1 retrocopy	retro_mmul_1523,
Monodelphis domestica	ENSMODG00000017183	1 retrocopy	retro_mdom_1995,
Mus musculus	ENSMUSG00000075000	2 retrocopies	retro_mmus_1278, retro_mmus_1279,
Otolemur garnettii	ENSOGAG00000005856	1 retrocopy	retro_ogar_2110,
Pongo abelii	ENSPPYG00000002411	3 retrocopies	retro_pabe_2327, retro_pabe_3285, retro_pabe_3286,
Pan troglodytes	ENSPTRG00000002539	3 retrocopies	retro_ptro_1780, retro_ptro_194, retro_ptro_2715,
Rattus norvegicus	ENSRNOG00000000641	2 retrocopies	retro_rnor_1681, retro_rnor_994,
Sarcophilus harrisii	ENSSHAG00000004744	1 retrocopy	retro_shar_427,
Ictidomys tridecemlineatus	ENSSTOG00000011341	1 retrocopy	retro_itri_183,