RetrogeneDB ID: retro_ggor_190

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 4:198892117..198893050(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000005953
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: YY1
• Ensembl ID: ENSGGOG00000026332
• Aliases: None
• Description: None

Sequence

>retro_ggor_190
ATGAACCAGCAACTGAAGAAACGGGCAAAGACGAGACACCAGAAAGGCCTGGGTGGAAGAACCCCCAGTGGGGCTAAGCC
CAGGCAAGGCAAGACAAGCCAAGACCTGCAGGCAGAAATAGAACCTGTCAGCGCGGTGTGGGCCTTATGTGATGGCTATG
TGTGCTATGAGCCTGGCCCTCAGGCTCTCGGAGGGGATGATTTCTCAGACTGTTACATAGAATGCGTCATAAGGGGTGAG
TTTTCTCAACCCATCCTGGAAGAGGACTCACTTTTTGAGTCCTTGGAATACCTAAAGAAAGGATCAGAACAACAGCTTTC
TCAAAAGGTTCTCGAAGCAAGCTCCCTTGAATGTTCTTTGGAATACATGAAAAAAGGGGTAAAGAAAGAGCTTCCACAAA
AGATCGTTGGAGAGAATTCGCTTGAGTATTCTGAGTACATGACAGGCAAGAAGCTTCCGCCTGGAGGAATACCTGGCATT
GACTTATCAGATCCTAAACAGCTCGCAGAATTTGCTAGAAAGAAGCCCCCCATAAATAAAGAATATGACAGTCTGAGCGC
AATCGCTTGTCCTCAGAGTGGATGCACTAGGAAGTTGAGGAATAGAGCTGCCCTGAGAAAGCATCTCCTCATTCATGGTC
CCCGAGACCACGTCTGTGCGGAATGTGGGAAAGCGTTCGTTGAGAGCTCAAAACTAAAAAGACATTTCCTGGTTCATACT
GGAGAGAAGCCGTTTCAGTGCACTTTTGAAGGGTGCGGAAAGCGCTTCTCTCTGGACTTTAATTTGCGTACGCACGTGCG
CATCCACACGGGGGAGAAACGCTTCGTGTGTCCCTTTCAAGGCTGCAACAGGAGGTTTATTCAGTCAAATAACCTGAAAG
CGCACATCCTAACGCATGCAAATACAAACAAGAATGAACAAGAGGGAAAGTAG

Alignment

ORF - retro_ggor_190 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.98 %
• Parental protein coverage: 51.21 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KKWEQKQVQIKTLEGEFSVTMWSSDEKKDIDHETVVEEQIIGENSPPDYSEYMTGKKLPPGGIPGIDLSD
          KK....Q...K.LE...S........KK....E......I.GENS...YSEYMTGKKLPPGGIPGIDLSD
Retrocopy KKGSEQQLSQKVLEAS-SLECSLEYMKKGVKKE--LPQKIVGENSL-EYSEYMTGKKLPPGGIPGIDLSD

Parental  PKQLAEFARMKPRKIKEDDAPRTIACPHKGCTKMFRDNSAMRKHLHTHGPRVHVCAECGKAFVESSKLKR
          PKQLAEFAR.KP...KE.D....IACP..GCT...R...A.RKHL..HGPR.HVCAECGKAFVESSKLKR
Retrocopy PKQLAEFARKKPPINKEYDSLSAIACPQSGCTRKLRNRAALRKHLLIHGPRDHVCAECGKAFVESSKLKR

Parental  HQLVHTGEKPFQCTFEGCGKRFSLDFNLRTHVRIHTGDRPYVCPFDGCNKKFAQSTNLKSHILTHAKAKN
          H.LVHTGEKPFQCTFEGCGKRFSLDFNLRTHVRIHTG....VCPF.GCN..F.QS.NLK.HILTHA....
Retrocopy HFLVHTGEKPFQCTFEGCGKRFSLDFNLRTHVRIHTGEKRFVCPFQGCNRRFIQSNNLKAHILTHANTNK

Parental  NQ
          N.
Retrocopy NE

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	17.84 RPM
SRP007412_cerebellum	0.20 RPM	18.87 RPM
SRP007412_heart	0.00 RPM	5.97 RPM
SRP007412_kidney	0.29 RPM	29.32 RPM
SRP007412_liver	0.11 RPM	25.96 RPM
SRP007412_testis	1.55 RPM	44.34 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_190 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_190 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_106
Pan troglodytes	retro_ptro_45
Pongo abelii	retro_pabe_145
Equus caballus	retro_ecab_97

---

Parental genes homology:

Parental genes homology involve 14 parental genes, and 27 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000011146	1 retrocopy	retro_amel_2,
Bos taurus	ENSBTAG00000020819	1 retrocopy	retro_btau_91,
Callithrix jacchus	ENSCJAG00000016853	2 retrocopies	retro_cjac_1931, retro_cjac_4045,
Cavia porcellus	ENSCPOG00000020809	2 retrocopies	retro_cpor_1220, retro_cpor_1522,
Equus caballus	ENSECAG00000005805	1 retrocopy	retro_ecab_97,
Homo sapiens	ENSG00000100811	2 retrocopies	retro_hsap_106, retro_hsap_97,
Gorilla gorilla	ENSGGOG00000026332	2 retrocopies	retro_ggor_190 , retro_ggor_2,
Mustela putorius furo	ENSMPUG00000002931	1 retrocopy	retro_mputfur_867,
Mus musculus	ENSMUSG00000021264	1 retrocopy	retro_mmus_190,
Nomascus leucogenys	ENSNLEG00000000999	3 retrocopies	retro_nleu_1092, retro_nleu_116, retro_nleu_2225,
Oryctolagus cuniculus	ENSOCUG00000026938	1 retrocopy	retro_ocun_1871,
Otolemur garnettii	ENSOGAG00000006955	4 retrocopies	retro_ogar_1231, retro_ogar_1804, retro_ogar_1857, retro_ogar_289,
Pongo abelii	ENSPPYG00000025949	3 retrocopies	retro_pabe_145, retro_pabe_3616, retro_pabe_534,
Pan troglodytes	ENSPTRG00000006717	3 retrocopies	retro_ptro_3093, retro_ptro_45, retro_ptro_494,