RetrogeneDB ID: retro_ggor_83

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 20:33143055..33143862(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000024187
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: ENSG00000197498
• Ensembl ID: ENSGGOG00000001469
• Aliases: None
• Description: None

Sequence

>retro_ggor_83
ATAGATGCTCTTGATCGAGTTGTAAAGCCCAAAATGAAAAGAGTCAAGAGATTCCTTGAGAAGAGAGAACCAAAACTCAA
TGAAAATATTAAAAATGCAATACTGATTAAAGGGGGAAATGCAAATGCAACAGTGACACAAGTACTTAAAGATGTGTGTG
CACTGAAAAAACCATACGGTGTACTGTATAAAAAGAAAAATGTTACAAGACCTTTTGAGGATCAGACGTCACTGGAATTA
CTTTCAAAGAAGTCAGATTGTTCTTTATTCATGTTTGGCTCCTATAATAAGAAGCGGCCAAATAATCTAGTAATAGGTCA
TATGTATGACTACCATGTGCTGGATATGATTGAATTAGGTATTGAGAATTTTGTCTCACTAAAAGACATTAAGAACAGTA
AATGTCCTGAGGGAACAAAATCCATGCTAATATTTGCTGGTGATGATTTCAATGTAACAGAAGATTACAGAAGACTAAAA
AGTCTTCTTACTGATTTCTTCAGAGGCCCCACAGTATCAAATATCTGCCTGGCTGGATTAGAATATGTTCTGCACTTCAC
TGCACTGAATGGGAAGATTTACTTTCGAAGATATAAGTTGCTGTTGAAGAAATCTGGTTGCAGAACACCATGGATTGAAT
TGGAAGAGATAGGACCCTCATTGAATCTGGTTCTGAGGAGGACACACCTGGCACCCGATGACCTTTATACATTATCTGTG
AAAATGCCAAAAGCTCTCAAGCCAAAGAAGAAGAAAAATATCTCCAATGATACTTTTGGTACAACTTATGGAAGGATTCA
TATGTAG

Alignment

ORF - retro_ggor_83 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.81 %
• Parental protein coverage: 87.62 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MDTLDRVVKPKTKRAKRFLEKKEPKLNENIKNAMLIKGGNANATVTKVLKDVYALKKPYGVLYKKKNITR
          .D.LDRVVKPK.KR.KRFLEK.EPKLNENIKNA.LIKGGNANATVT.VLKDV.ALKKPYGVLYKKKN.TR
Retrocopy IDALDRVVKPKMKRVKRFLEKREPKLNENIKNAILIKGGNANATVTQVLKDVCALKKPYGVLYKKKNVTR

Parental  PFEDQTSLEFFSKKSDCSLFMFGSHNKKRPNNLVIGRMYDYHVLDMIELGIENFVSLKDIKSPQFPQVQK
          PFEDQTSLE..SKKSDCSLFMFGS.NKKRPNNLVIG.MYDYHVLDMIELGIENFVSLKDIK....P...K
Retrocopy PFEDQTSLELLSKKSDCSLFMFGSYNKKRPNNLVIGHMYDYHVLDMIELGIENFVSLKDIKNSKCPEGTK

Parental  PTSVFTSNDDFDVTEDYRRLKSLLIDFFRGPTVSNIRLAGLEYVLHFTALNGKIYFRSYKILIKRCFSCR
          ....F...DDF.VTEDYRRLKSLL.DFFRGPTVSNI.LAGLEYVLHFTALNGKIYFR.YK.L.K....CR
Retrocopy SMLIF-AGDDFNVTEDYRRLKSLLTDFFRGPTVSNICLAGLEYVLHFTALNGKIYFRRYKLLLKKS-GCR

Parental  TEHWIFKNKQTALDLKGKKKIKGYRAIYTVSLE-GQALKPKKKKNISHDTFGTTYGRIHM
          T...........L.L............YT.S.....ALKPKKKKNIS.DTFGTTYGRIHM
Retrocopy TPWIELEEIGPSLNLVLRRTHLAPDDLYTLSVKMPKALKPKKKKNISNDTFGTTYGRIHM

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	1.10 RPM	2.25 RPM
SRP007412_cerebellum	0.71 RPM	2.01 RPM
SRP007412_heart	0.78 RPM	0.75 RPM
SRP007412_kidney	1.47 RPM	3.88 RPM
SRP007412_liver	2.35 RPM	4.06 RPM
SRP007412_testis	5.91 RPM	11.50 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_83 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_83 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2425
Pan troglodytes	retro_ptro_1398
Pongo abelii	retro_pabe_1788

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Parental genes homology:

Parental genes homology involve 17 parental genes, and 37 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000003918	2 retrocopies	retro_cfam_1611, retro_cfam_903,
Callithrix jacchus	ENSCJAG00000005212	6 retrocopies	retro_cjac_1675, retro_cjac_1768, retro_cjac_2244, retro_cjac_2473, retro_cjac_606, retro_cjac_933,
Cavia porcellus	ENSCPOG00000006797	2 retrocopies	retro_cpor_332, retro_cpor_582,
Equus caballus	ENSECAG00000017121	1 retrocopy	retro_ecab_782,
Erinaceus europaeus	ENSEEUG00000006169	2 retrocopies	retro_eeur_454, retro_eeur_584,
Felis catus	ENSFCAG00000001527	1 retrocopy	retro_fcat_1584,
Homo sapiens	ENSG00000197498	1 retrocopy	retro_hsap_2425,
Gorilla gorilla	ENSGGOG00000001469	1 retrocopy	retro_ggor_83 ,
Myotis lucifugus	ENSMLUG00000005676	2 retrocopies	retro_mluc_485, retro_mluc_921,
Macaca mulatta	ENSMMUG00000021532	1 retrocopy	retro_mmul_1903,
Mus musculus	ENSMUSG00000038510	1 retrocopy	retro_mmus_2234,
Nomascus leucogenys	ENSNLEG00000012854	3 retrocopies	retro_nleu_2024, retro_nleu_2434, retro_nleu_2445,
Oryctolagus cuniculus	ENSOCUG00000016028	1 retrocopy	retro_ocun_831,
Pongo abelii	ENSPPYG00000016925	2 retrocopies	retro_pabe_1788, retro_pabe_2464,
Pan troglodytes	ENSPTRG00000018503	1 retrocopy	retro_ptro_1398,
Rattus norvegicus	ENSRNOG00000000587	1 retrocopy	retro_rnor_2336,
Tupaia belangeri	ENSTBEG00000017151	9 retrocopies	retro_tbel_1824, retro_tbel_2243, retro_tbel_2376, retro_tbel_2576, retro_tbel_3547, retro_tbel_3635, retro_tbel_3803, retro_tbel_3876, retro_tbel_4509,