RetrogeneDB ID: retro_ggor_787

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 12:33418522..33419753(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ASS1
• Ensembl ID: ENSGGOG00000010228
• Aliases: None
• Description: None

Sequence

>retro_ggor_787
GCTATGTCCAGCAAAGGCTCTGTGGTTCTGGCCTACAGTGGCGGCCTGGACACCTCCTGCATCCTCCTGTAGCTGAAGGA
ACAAGGCTATGATGTCATTGCCTACTTGGCCAACATTAGCCAGAAGGAAGATTTCAAGGAAACCAGGAAGAAGCATTGAA
GCTTGGGGCCAAAAAGGTGTTCACTGAGGATGTCAGCAGGGAGTTTGTGGAGGAGTTCATCTGGCCAGCCATCCAGTTCA
GCGCACTGTATGAGGACCGCTACCTCCTGGGCACTTCTCTCACCAGGCCCTGCATCGCCCGTAAACAAGTGGAAATCGCC
CACCGGGAGGGGGCCAAGTACGTGTCCCATGGTGTCACGGGAAAGGGGAGCGATCAGGTCCAGTTTGAGCTCAACTGCTA
CTCGCTGGCTCCCCAGATAAAGGTCATTGCTCCCTGGAGCATGCCTGAGTTCTACAACCGGTTCAAGGGCCGCAATGACC
TGATGGAATACGCAAAGCACCACGGGATTCCCAACCTGGTCACTCCCAAGAACCTGTGGAGCATGAACAAGAACCTCATG
CACATCAGCTATGAGGCTGGAATCCTGGAGAATCCCAAGAACCAAGTGCCTCCAGGTCTCTACGCGAAGACCCAGGACCC
GGCCCCCAACACCCCTGACATTCTCGAGATTGAGTTAAAAAAGGGGTCCCTGTGAAGGTGATTGACATCAAGGATGGCTC
CACCTACCAGACCTCCTTGGAGCTCTTCATGTACCTGAACGAAGTCGCGGGCAAGCACGGCGTGGGCCGTACTGACGTCG
TGGAGAACCGCTTCATTGGAATGAAGTCTCGAGGTATCTAGGAGGCCCCGGCAGGCACCATCCTTTACCACGCTCATTTA
GACATCAAGGCCTTCACCATGGACTGGGAAGTGCACAAAATCAAACAAGGCCTGGGCTTGAAATTTGCTGAGCTGGTATA
TACCGGTTTCTGGCACAGCACTGAGTGTGAATTTGCCTGCCACTGCTTCGCCAAGTCCCAGGAGCCAGTGGAAGGGAAAG
TGCAGGTGTCTGTCTTCAAGGGCCAGGTGTACATCCTCAGCCGGGAGTCCCCACTGTCTCTCTACAATGAGAAGCTGGTG
AGCATGAACATGCGGGGTGATTATGAGCCAATTGATGCTACTGGTTTCATCAACATCAGTTCCCTCAGGCTGAAGGAATA
TCATCATCTCCAGAGCAAGGTCACTGCCAAA

Alignment

ORF - retro_ggor_787 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.23 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  AMSSKGSVVLAYSGGLDTSCILVWLKEQGYDVIAYLANIGQKEDFEEARKK-ALKLGAKKVFIEDVSREF
          AMSSKGSVVLAYSGGLDTSCIL..LKEQGYDVIAYLANI.QKEDF.E.RKK.ALKLGAKKVF.EDVSREF
Retrocopy AMSSKGSVVLAYSGGLDTSCILL*LKEQGYDVIAYLANISQKEDFKETRKK<ALKLGAKKVFTEDVSREF

Parental  VEEFIWPAIQSSALYEDRYLLGTSLARPCIARKQVEIAQREGAKYVSHGATGKGNDQVRFELSCYSLAPH
          VEEFIWPAIQ.SALYEDRYLLGTSL.RPCIARKQVEIA.REGAKYVSHG.TGKG.DQV.FEL.CYSLAP.
Retrocopy VEEFIWPAIQFSALYEDRYLLGTSLTRPCIARKQVEIAHREGAKYVSHGVTGKGSDQVQFELNCYSLAPQ

Parental  IKVIAPWRMPEFYNRFKGRNDLMEYAKQHGIPIPVTPKNPWSMDENLMHISYEAGILENPKNQAPPGLYT
          IKVIAPW.MPEFYNRFKGRNDLMEYAK.HGIP..VTPKN.WSM..NLMHISYEAGILENPKNQ.PPGLY.
Retrocopy IKVIAPWSMPEFYNRFKGRNDLMEYAKHHGIPNLVTPKNLWSMNKNLMHISYEAGILENPKNQVPPGLYA

Parental  KTQDPAKAPNTPDILEIEFKKG-VPVKVTNVKDGTTHQTSLELFMYLNEVAGKHGVGRIDIVENRFIGMK
          KTQDPA..PNTPDILEIE.KKG.VPVKV...KDG.T.QTSLELFMYLNEVAGKHGVGR.D.VENRFIGMK
Retrocopy KTQDPA--PNTPDILEIELKKG<VPVKVIDIKDGSTYQTSLELFMYLNEVAGKHGVGRTDVVENRFIGMK

Parental  SRGIYETPAGTILYHAHLDIEAFTMDREVRKIKQGLGLKFAELVYTGFWHSPECEFVRHCIAKSQERVEG
          SRGI.E.PAGTILYHAHLDI.AFTMD.EV.KIKQGLGLKFAELVYTGFWHS.ECEF..HC.AKSQE.VEG
Retrocopy SRGI*EAPAGTILYHAHLDIKAFTMDWEVHKIKQGLGLKFAELVYTGFWHSTECEFACHCFAKSQEPVEG

Parental  KVQVSVLKGQVYILGRESPLSLYNEELVSMNVQGDYEPTDATGFININSLRLKEYHRLQSKVTAK
          KVQVSV.KGQVYIL.RESPLSLYNE.LVSMN..GDYEP.DATGFINI.SLRLKEYH.LQSKVTAK
Retrocopy KVQVSVFKGQVYILSRESPLSLYNEKLVSMNMRGDYEPIDATGFINISSLRLKEYHHLQSKVTAK

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	0.05 RPM	50.35 RPM
SRP007412_cerebellum	0.04 RPM	33.84 RPM
SRP007412_heart	0.03 RPM	20.98 RPM
SRP007412_kidney	0.16 RPM	925.89 RPM
SRP007412_liver	0.05 RPM	400.50 RPM
SRP007412_testis	0.31 RPM	108.68 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_787 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_787 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_985
Pan troglodytes	retro_ptro_762
Pongo abelii	retro_pabe_834

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 68 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000020554	3 retrocopies	retro_cjac_1219, retro_cjac_4038, retro_cjac_4209,
Homo sapiens	ENSG00000130707	14 retrocopies	retro_hsap_2247, retro_hsap_2885, retro_hsap_3109, retro_hsap_3175, retro_hsap_3252, retro_hsap_3564, retro_hsap_3824, retro_hsap_4149, retro_hsap_4182, retro_hsap_4648, retro_hsap_4743, retro_hsap_4934, retro_hsap_820, retro_hsap_985,
Gorilla gorilla	ENSGGOG00000010228	8 retrocopies	retro_ggor_1346, retro_ggor_1675, retro_ggor_2134, retro_ggor_2403, retro_ggor_2574, retro_ggor_2787, retro_ggor_671, retro_ggor_787 ,
Myotis lucifugus	ENSMLUG00000006066	2 retrocopies	retro_mluc_1058, retro_mluc_1304,
Mus musculus	ENSMUSG00000076441	1 retrocopy	retro_mmus_135,
Nomascus leucogenys	ENSNLEG00000012500	13 retrocopies	retro_nleu_1088, retro_nleu_1245, retro_nleu_1317, retro_nleu_1381, retro_nleu_1390, retro_nleu_1424, retro_nleu_1701, retro_nleu_1792, retro_nleu_220, retro_nleu_253, retro_nleu_2680, retro_nleu_2764, retro_nleu_625,
Pongo abelii	ENSPPYG00000019692	13 retrocopies	retro_pabe_1963, retro_pabe_2390, retro_pabe_2637, retro_pabe_2696, retro_pabe_2937, retro_pabe_3069, retro_pabe_3197, retro_pabe_3422, retro_pabe_3460, retro_pabe_3521, retro_pabe_3522, retro_pabe_731, retro_pabe_834,
Pan troglodytes	ENSPTRG00000021473	14 retrocopies	retro_ptro_1590, retro_ptro_1951, retro_ptro_2101, retro_ptro_2199, retro_ptro_2268, retro_ptro_2421, retro_ptro_2602, retro_ptro_2821, retro_ptro_2836, retro_ptro_3064, retro_ptro_3158, retro_ptro_3298, retro_ptro_571, retro_ptro_762,