RetrogeneDB ID: retro_ggor_133

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 15:38536538..38538134(-)
• Located in intron of: ENSGGOG00000007653

Retrocopy information

• Ensembl ID: ENSGGOG00000034924
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSGGOG00000011439
• Aliases: None
• Description: None

Sequence

>retro_ggor_133
ATGGCGGCAGTGAAGACCCTGAACCCCAAGGCAGAGGTGACTCGAGCGCAGGCGGCGCTGGCGGTTAACATCAGCGCGGC
GCGGGGTCTGCAGGACGTGCTAAGGACCAACCTGGGGCCCAAGGGCACCATGAAGATGCTCGTTTCTGGCGCTGGAGACA
TCAAACTTACTAAAGACGGCAATGTACTGCTTCACGAAATGCAAATTCAACACCCAACAGCTTCTTTAATAGCAAAGGTA
GCAACAGCCCAGGATGATATAACTGGTGATGGTACGACTTCTAATGTCCTAATCATTGGAGAGCTGCTGAAACAGGCGGA
TCTCTACATTTCTGAAGGCCTTCATCCCAGAATAATCACTGAAGGATTTGAAGCTGCAAAGGAAAAGGCCCTTCAGTTTT
TGGAAGAAGTCAAAGTAAGCAGAGAGATGGACAGGGAAACACTTGTAGATGTGGCCAGAACATCTCTTCGTACTAAAGTT
CATGCTGAACTTGCAGATGTCTTAACAGAGGCTGTAGTGGACTCCATTTTGGCCATTAAAAAGCAAGATGAACCTATTGA
TCTCTTCATGATTGAGATCATGGAGATGAAACATAAATCTGAAACTGATACAAGCTTAATCAGAGGGCTTGTTTTGGACC
ACGGAGCACGGCATCCTGATATGAAGAAAAGGGTGGAGGATGCATACATCCTCACTTGTAACGTGTCATTAGAGTATGAA
AAAACAGAAGTGAATTCTGGCTTTTTTTACAAGAGTGCAGAAGAGAGAGAAAAACTCGTGAAAGCTGAAAGAAAATTCAT
TGAAGATAGAGTTAAAAAAATAATAGAACTGAAAAGGAAAGTCTGTGGCGATTCAGATAAAGGATTTGTTGTTATTAATC
AAAAGGGAATTGACCCCTTTTCCTTACATGCTCTTTCAAAAGAAGGCATAGTCGCTCTGCGCAGAGCTAAAAGGAGAAAT
ATGGAGAGGCTGACTCTTGCTTATGGTGGGGTAGCCCTGAATTCTTTTGACGACCTAAGTCCTGACTGCTTGGGACATGC
AGGACTTGTATATGAGTATACATTGGGAGAAGAGAAGTTTACCTTTATTGAGAAATGTAACAACCCTCGTTCTGTCACAT
TATTGATCAAAGGACCAAATAAGCACACACTCACTCAGATCAAAGATGCAGTGAGGGATGGTTTGAGGGCTGTCAAAAAT
GCTATTGATGATGGCTGTGTGGTTCCAGGTGCTGGTGCCGTGGAAGTGGCAATGGCAGAAGCCCTGATTAAACATAAGCC
CAGTGTAAAGGGCAGGGCACAGCTTGGAGTCCAAGCATTTGCTGATGATGCATTGCTCATTATTCCCAAGGTTCTTGCTC
AGAACTCTGGTTTTGACCTTCAGGAAACATTAGTTAAAATTCAAGCAGAACATTCAGAATCAGGTCAGCTTGTGGGTGTG
GACCTGAACACAGGTGAGCCAATGGTAGCAGCAGAAGTAGGCGTATGGGATAACTATTGGGTAAAGAAACAGCTTCTTCA
CTCCTGCACTGTGATTGCCACCAACATTCTCTTGGTTGATGAGATCATGCGAGCTGGAATGTCTTCTCTGAAAGGT

Alignment

ORF - retro_ggor_133 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.87 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAAVKTLNPKAEVARAQAALAVNISAARGLQDVLRTNLGPKGTMKMLVSGAGDIKLTKDGNVLLHEMQIQ
          MAAVKTLNPKAEV.RAQAALAVNISAARGLQDVLRTNLGPKGTMKMLVSGAGDIKLTKDGNVLLHEMQIQ
Retrocopy MAAVKTLNPKAEVTRAQAALAVNISAARGLQDVLRTNLGPKGTMKMLVSGAGDIKLTKDGNVLLHEMQIQ

Parental  HPTASLIAKVATAQDDITGDGTTSNVLIIGELLKQADLYISEGLHPRIITEGFEAAKEKALQFLEEVKVS
          HPTASLIAKVATAQDDITGDGTTSNVLIIGELLKQADLYISEGLHPRIITEGFEAAKEKALQFLEEVKVS
Retrocopy HPTASLIAKVATAQDDITGDGTTSNVLIIGELLKQADLYISEGLHPRIITEGFEAAKEKALQFLEEVKVS

Parental  REMDRETLIDVARTSLRTKVHAELADVLTEAVVDSILAIKKQDEPIDLFMIEIMEMKHKSETDTSLIRGL
          REMDRETL.DVARTSLRTKVHAELADVLTEAVVDSILAIKKQDEPIDLFMIEIMEMKHKSETDTSLIRGL
Retrocopy REMDRETLVDVARTSLRTKVHAELADVLTEAVVDSILAIKKQDEPIDLFMIEIMEMKHKSETDTSLIRGL

Parental  VLDHGARHPDMKKRVEDAYILTCNVSLEYEKTEVNSGFFYKSAEEREKLVKAERKFIEDRVKKIIELKRK
          VLDHGARHPDMKKRVEDAYILTCNVSLEYEKTEVNSGFFYKSAEEREKLVKAERKFIEDRVKKIIELKRK
Retrocopy VLDHGARHPDMKKRVEDAYILTCNVSLEYEKTEVNSGFFYKSAEEREKLVKAERKFIEDRVKKIIELKRK

Parental  VCGDSDKGFVVINQKGIDPFSLDALSKEGIVALRRAKRRNMERLTLACGGVALNSFDDLSPDCLGHAGLV
          VCGDSDKGFVVINQKGIDPFSL.ALSKEGIVALRRAKRRNMERLTLA.GGVALNSFDDLSPDCLGHAGLV
Retrocopy VCGDSDKGFVVINQKGIDPFSLHALSKEGIVALRRAKRRNMERLTLAYGGVALNSFDDLSPDCLGHAGLV

Parental  YEYTLGEEKFTFIEKCNNPRSVTLLIKGPNKHTLTQIKDAVRDGLRAVKNAIDDGCVVPGAGAVEVAMAE
          YEYTLGEEKFTFIEKCNNPRSVTLLIKGPNKHTLTQIKDAVRDGLRAVKNAIDDGCVVPGAGAVEVAMAE
Retrocopy YEYTLGEEKFTFIEKCNNPRSVTLLIKGPNKHTLTQIKDAVRDGLRAVKNAIDDGCVVPGAGAVEVAMAE

Parental  ALIKHKPSVKGRAQLGVQAFA-DALLIIPKVLAQNSGFDLQETLVKIQAEHSESGQLVGVDLNTGEPMVA
          ALIKHKPSVKGRAQLGVQAFA.DALLIIPKVLAQNSGFDLQETLVKIQAEHSESGQLVGVDLNTGEPMVA
Retrocopy ALIKHKPSVKGRAQLGVQAFADDALLIIPKVLAQNSGFDLQETLVKIQAEHSESGQLVGVDLNTGEPMVA

Parental  AEVGVWDNYCVKKQLLHSCTVIATNILLVDEIMRAGMSSLKG
          AEVGVWDNY.VKKQLLHSCTVIATNILLVDEIMRAGMSSLKG
Retrocopy AEVGVWDNYWVKKQLLHSCTVIATNILLVDEIMRAGMSSLKG

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	78.26 RPM
SRP007412_cerebellum	0.04 RPM	55.63 RPM
SRP007412_heart	0.00 RPM	16.82 RPM
SRP007412_kidney	0.00 RPM	83.09 RPM
SRP007412_liver	0.00 RPM	35.14 RPM
SRP007412_testis	0.00 RPM	86.61 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_133 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_133 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 19 parental genes, and 25 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000016077	1 retrocopy	retro_amel_855,
Canis familiaris	ENSCAFG00000010149	1 retrocopy	retro_cfam_431,
Choloepus hoffmanni	ENSCHOG00000000654	3 retrocopies	retro_chof_1183, retro_chof_1193, retro_chof_150,
Callithrix jacchus	ENSCJAG00000021279	2 retrocopies	retro_cjac_1320, retro_cjac_580,
Dipodomys ordii	ENSDORG00000001249	1 retrocopy	retro_dord_617,
Felis catus	ENSFCAG00000027654	2 retrocopies	retro_fcat_1102, retro_fcat_320,
Homo sapiens	ENSG00000146731	2 retrocopies	retro_hsap_2741, retro_hsap_3290,
Gorilla gorilla	ENSGGOG00000011439	1 retrocopy	retro_ggor_133 ,
Loxodonta africana	ENSLAFG00000012791	1 retrocopy	retro_lafr_808,
Macaca mulatta	ENSMMUG00000015272	1 retrocopy	retro_mmul_2582,
Monodelphis domestica	ENSMODG00000006565	1 retrocopy	retro_mdom_1330,
Nomascus leucogenys	ENSNLEG00000015664	1 retrocopy	retro_nleu_1355,
Oryctolagus cuniculus	ENSOCUG00000017674	1 retrocopy	retro_ocun_468,
Procavia capensis	ENSPCAG00000015532	1 retrocopy	retro_pcap_263,
Pongo abelii	ENSPPYG00000025820	1 retrocopy	retro_pabe_2719,
Pan troglodytes	ENSPTRG00000019206	2 retrocopies	retro_ptro_1854, retro_ptro_2225,
Pteropus vampyrus	ENSPVAG00000001421	1 retrocopy	retro_pvam_663,
Rattus norvegicus	ENSRNOG00000000923	1 retrocopy	retro_rnor_2226,
Tursiops truncatus	ENSTTRG00000015158	1 retrocopy	retro_ttru_1552,