RetrogeneDB ID: retro_ggor_1623

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 22:26479952..26481136(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000005816
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: OLA1
• Ensembl ID: ENSGGOG00000022215
• Aliases: None
• Description: None

Sequence

>retro_ggor_1623
ATGCCCCCTCAAAAGGGAGGTGATGGAATTAAACCACCCCCAATCATTGGAAGATTTGGAACCTCACTGAAAATTGGTAT
TGTTGGATTGCCAAATGTTGGGAAATCTACTTTCTTCAATGTATTAACCAATAGTCAGGCTTCAGCAGAAAACTTCCCAT
TCTGCACTATTGATCCTAATGAGAGCAGAGTACCTGTGCCAGATGAAAGGTTTGACTTTCTTTGCCAATATCACAAACCA
GCAAGCAAAATTCCTGCCTTTCTAAATGTAGTGGATATTGCTGGCCTTGTGAAAGGAGCTCACAATGGGCAGGGCCTGGG
GAATGCTTTTTTATCTCATTTTAGTGCTTGTGATGGCATCTTTCATCTAACACGTGCTTTTGCAGATGATGATATCACGC
ATGTTGAAGAAAGTGTAGATCCTATTCGAGATATAGAAATAATACATGAAGAGCTTCAGCTTAAAGATGAGGAATGACTG
GGCCCGTTATAGATAAACTAGAAAAGGTGGCTGTGAGAGGAGATAAAAAACTAAAACCTGAATATGACATAATGTGCAAA
GTAAAATCCTGGGTTACAGATCAAAAGAACCTGTTCGCTTCTATCATGATTGGAATGACAAAGAGATTGAAGTGTTGAAT
AAACACTTATTTTTGACTTCAAAACCAATGGTCTACTTGGTTAATCTTTCTGAAAAAGACTACATTAGAAAGAAAAACAA
ATGGTTGATAAAAATTAAAGAGTGGGTGGACAAGTATGACCCAGGTGCCTTGGTCATTCCTTTTAGTGGGGCCTTGGAAC
TCAAGTTGCAAGAATTGAGTGCTGAGGAGAGACAGCAGTATCTGGAAGCGAACATGACACAAAGTGCTTTGCCAAAGATC
ATTAAGGCTGGGTTTGCAGCACTCCAACTAAAATACTTTTTTCACTGCAGGCCCAGATGAAGTGCGTGCACGGACCATCA
GGAAAGGGACTAAGGCTCCTCAGGCTGCAGGAAAGATTCACACAGATTTTGAAAAGGGATTCATTATGGCTGAAGTAATG
AAATATGAAGATTTTAAAGAGGAAGGTTCTGAAAATGCAGTCAAGGCTGCTGGAAAGTACAGACAACAAGGCAGAAATTA
TATTGTTGAAGATGGAGATATTATCTTCTTCAAATTTAACACACCTTAACAACCAAAGAAGAAA

Alignment

ORF - retro_ggor_1623 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.74 %
• Parental protein coverage: 95.19 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MPPKKGGDGIKPPPIIGRFGTSLKVGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDER
          MPP.KGGDGIKPPPIIGRFGTSLK.GIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDER
Retrocopy MPPQKGGDGIKPPPIIGRFGTSLKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDER

Parental  FDFLCQYHKPASKIPAFLNVVDIAGLVKGAHNGQGLGNAFLSHISACDGIFHLTRAFEDDDITHVEGSVD
          FDFLCQYHKPASKIPAFLNVVDIAGLVKGAHNGQGLGNAFLSH.SACDGIFHLTRAF.DDDITHVE.SVD
Retrocopy FDFLCQYHKPASKIPAFLNVVDIAGLVKGAHNGQGLGNAFLSHFSACDGIFHLTRAFADDDITHVEESVD

Parental  PIRDIEIIHEELQLKDEE-MIGPIIDKLEKVAVRGGDKKLKPEYDIMCKVKSWVIDQ-KKPVRFYHDWND
          PIRDIEIIHEELQLKDEE.M.GP.IDKLEKVAVR.GDKKLKPEYDIMCKVKSWV.DQ.K.PVRFYHDWND
Retrocopy PIRDIEIIHEELQLKDEE<MTGPVIDKLEKVAVR-GDKKLKPEYDIMCKVKSWVTDQ<KEPVRFYHDWND

Parental  KEIEVLNKHLFLTSKPMVYLVNLSEKDYIRKKNKWLIKIKEWVDKYDPGALVIPFSGALELKLQELSAEE
          KEIEVLNKHLFLTSKPMVYLVNLSEKDYIRKKNKWLIKIKEWVDKYDPGALVIPFSGALELKLQELSAEE
Retrocopy KEIEVLNKHLFLTSKPMVYLVNLSEKDYIRKKNKWLIKIKEWVDKYDPGALVIPFSGALELKLQELSAEE

Parental  RQKYLEANMTQSALPKIIKAGFAALQLEY-FFTAGPDEVRAWTIRKGTKAPQAAGKIHTDFEKGFIMAEV
          RQ.YLEANMTQSALPKIIKAGFAALQL.Y.FFTAGPDEVRA.TIRKGTKAPQAAGKIHTDFEKGFIMAEV
Retrocopy RQQYLEANMTQSALPKIIKAGFAALQLKY>FFTAGPDEVRARTIRKGTKAPQAAGKIHTDFEKGFIMAEV

Parental  MKYEDFKEEGSENAVKAAGKYRQQGRNYIVEDGDIIFFKFNTPQQPKKK
          MKYEDFKEEGSENAVKAAGKYRQQGRNYIVEDGDIIFFKFNTP.QPKKK
Retrocopy MKYEDFKEEGSENAVKAAGKYRQQGRNYIVEDGDIIFFKFNTP*QPKKK

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	0.62 RPM	52.80 RPM
SRP007412_cerebellum	0.47 RPM	39.71 RPM
SRP007412_heart	0.09 RPM	8.44 RPM
SRP007412_kidney	0.16 RPM	42.07 RPM
SRP007412_liver	0.24 RPM	15.91 RPM
SRP007412_testis	2.18 RPM	57.71 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_1623 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1623 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2593
Pan troglodytes	retro_ptro_1517
Pongo abelii	retro_pabe_1912

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Parental genes homology:

Parental genes homology involve 15 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000006970	1 retrocopy	retro_btau_1737,
Choloepus hoffmanni	ENSCHOG00000005044	1 retrocopy	retro_chof_1295,
Callithrix jacchus	ENSCJAG00000007877	1 retrocopy	retro_cjac_2875,
Dipodomys ordii	ENSDORG00000008681	1 retrocopy	retro_dord_556,
Homo sapiens	ENSG00000138430	1 retrocopy	retro_hsap_2593,
Gorilla gorilla	ENSGGOG00000022215	1 retrocopy	retro_ggor_1623 ,
Myotis lucifugus	ENSMLUG00000025196	1 retrocopy	retro_mluc_626,
Monodelphis domestica	ENSMODG00000009296	1 retrocopy	retro_mdom_1428,
Nomascus leucogenys	ENSNLEG00000005817	1 retrocopy	retro_nleu_1526,
Otolemur garnettii	ENSOGAG00000016557	1 retrocopy	retro_ogar_1697,
Pongo abelii	ENSPPYG00000012943	2 retrocopies	retro_pabe_1912, retro_pabe_928,
Pan troglodytes	ENSPTRG00000012650	1 retrocopy	retro_ptro_1517,
Sorex araneus	ENSSARG00000010743	1 retrocopy	retro_sara_545,
Tarsius syrichta	ENSTSYG00000005517	2 retrocopies	retro_tsyr_1845, retro_tsyr_394,
Vicugna pacos	ENSVPAG00000009660	2 retrocopies	retro_vpac_52, retro_vpac_613,