RetrogeneDB ID: retro_ggor_934

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 13:29929457..29930599(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NAP1L1
• Ensembl ID: ENSGGOG00000003883
• Aliases: None
• Description: None

Sequence

>retro_ggor_934
ATGGCAGACATTGACAACAAAGAACAGTCTGAACTTGATCAAGATTTGGATGATGCTGAAAAAGTAGAAGAAGAAACTGG
TGAAGAAACAAAAATCAAAGCACATGAGCTAACTGTTCAGATGATGCAAAATCCTCAGATTCTTGCAGCCCTTCAAGAAA
GACTTATGGTCTAATAGAAACACCAGTAGGATACATTGAAAGCCTGCCTAGGGTAGTTAAAAAACAAATGAATGCTCTCA
AACACCTGTAAGTTAAATGTGCACAGATAGAAGCCAAATTCAATGAGGAAGTTCACAATCTTGAAAGGAAGTATGCTGTT
CTCTGTCAGCCTCTATTTGATAAGCAATTTGAGATTATTAATGCAATTACGAACCTACAGAAGAAGAATGGAAACCAGAT
GAAGAAGATGAGATCTCAGAGGAGTTGAAAGAAAAGGCCATGATTGAAGATGAGAAAAAAGATGAAGAAAAAGAAGATTC
CAAAGGAATTCCTGAATTTCGGTTAACTGTTTTTAAGAATGTTGACTTGCTCAGTGATATGCTTCAGGAGCATGATGAAC
CTATTCTGAAGCACTTGAAAGATATTAAAGTGAAGTTCTCAGATGCTTGCCAGCCCATGAGTTTTGTCTTAGAATTTCAC
TTTGAAGCCAATGAATATTTTACAAATGAAGTGCTGACAAAGACGTATAGCATGAGGTCAGAACCAGATGATTCTGATCC
CTTTTATTTTGATGGACCAGAAATTATGGGTTTTACAGGGTGCCAGATAGATTGGAAAAAAGGAAAGAATGTCACTTTGA
AAACCATTAAGAAGAAGCAGAAACCCAAGGGACGTGGGACAGTTAGTACTGTGACTAAAACAGTTTCCAATGACTCTTTC
TTTAAATTTTTTGCCCCTCCTGAAGTTTCTGAGAGCGGAGATCTGGATGATGATGCTAAAACAATCCTTGCTGCAGACTT
CGAAACTGGTCACTTTTTACCTGAACGTATAATCTCAGGATCAGTTTTATACTTTACTGGAGAAGCTATTGAAGATGGAT
GATGATGATTATGATGAAGAAGGTGAAGAAGCAGATGAGGAAGGAGAACAAGAAGGAGATGAGGAAAATGATCCAGACTA
TGACCCAAAGAAGGATTAAAAT

Alignment

ORF - retro_ggor_934 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.1 %
• Parental protein coverage: 98.21 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MADIDNKEQSELDQDLDDVEEVEEEETGEETKIKARQLTVQMMQNPQILAALQERLD-GLVETPTGYIES
          MADIDNKEQSELDQDLDD.E.VEEE.TGEETKIKA..LTVQMMQNPQILAALQERL..GL.ETP.GYIES
Retrocopy MADIDNKEQSELDQDLDDAEKVEEE-TGEETKIKAHELTVQMMQNPQILAALQERLM<GLIETPVGYIES

Parental  LPRVVKRRVNALKNLQVKCAQIEAKFYEEVHDLERKYAVLYQPLFDKRFEIINAI-YEPTEEECEWKPDE
          LPRVVK...NALK.L.VKCAQIEAKF.EEVH.LERKYAVL.QPLFDK.FEIINAI.YEPTEEE..WKPDE
Retrocopy LPRVVKKQMNALKHL*VKCAQIEAKFNEEVHNLERKYAVLCQPLFDKQFEIINAI<YEPTEEE--WKPDE

Parental  EDEISEELKEKAKIEDEKKDEEKEDPKGIPEFWLTVFKNVDLLSDMVQEHDEPILKHLKDIKVKFSDAGQ
          EDEISEEL..................KGIPEF.LTVFKNVDLLSDM.QEHDEPILKHLKDIKVKFSDA.Q
Retrocopy EDEISEELXXXXXXXXXXXXXXXXXSKGIPEFRLTVFKNVDLLSDMLQEHDEPILKHLKDIKVKFSDACQ

Parental  PMSFVLEFHFEPNEYFTNEVLTKTYRMRSEPDDSDPFSFDGPEIMGCTGCQIDWKKGKNVTLKTIKKKQK
          PMSFVLEFHFE.NEYFTNEVLTKTY.MRSEPDDSDPF.FDGPEIMG.TGCQIDWKKGKNVTLKTIKKKQK
Retrocopy PMSFVLEFHFEANEYFTNEVLTKTYSMRSEPDDSDPFYFDGPEIMGFTGCQIDWKKGKNVTLKTIKKKQK

Parental  HKGRGTVRTVTKTVSNDSFFNFFAPPEVPESGDLDDDAEAILAADFEIGHFLRERIIPRSVLYFTGEAIE
          .KGRGTV.TVTKTVSNDSFF.FFAPPEV.ESGDLDDDA..ILAADFE.GHFL.ERII..SVLYFTGEAIE
Retrocopy PKGRGTVSTVTKTVSNDSFFKFFAPPEVSESGDLDDDAKTILAADFETGHFLPERIISGSVLYFTGEAIE

Parental  D-DDDDYDEEGEEADEEGEEEGDEENDPDYDPKKDQN
          D.DDDD...................NDPDYDPKKD.N
Retrocopy D>DDDDXXXXXXXXXXXXXXXXXXXNDPDYDPKKD*N

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	0.34 RPM	129.52 RPM
SRP007412_cerebellum	0.08 RPM	70.21 RPM
SRP007412_heart	0.09 RPM	37.62 RPM
SRP007412_kidney	0.04 RPM	111.42 RPM
SRP007412_liver	0.13 RPM	56.19 RPM
SRP007412_testis	0.10 RPM	174.57 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_934 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_934 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1199
Pan troglodytes	retro_ptro_819

---

Parental genes homology:

Parental genes homology involve 18 parental genes, and 46 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000020908	8 retrocopies	retro_btau_1319, retro_btau_1324, retro_btau_1462, retro_btau_1487, retro_btau_474, retro_btau_652, retro_btau_70, retro_btau_935,
Callithrix jacchus	ENSCJAG00000001115	1 retrocopy	retro_cjac_534,
Felis catus	ENSFCAG00000000279	1 retrocopy	retro_fcat_1037,
Homo sapiens	ENSG00000187109	3 retrocopies	retro_hsap_1199, retro_hsap_2696, retro_hsap_833,
Gorilla gorilla	ENSGGOG00000003883	3 retrocopies	retro_ggor_1879, retro_ggor_686, retro_ggor_934 ,
Gorilla gorilla	ENSGGOG00000013223	1 retrocopy	retro_ggor_423,
Macropus eugenii	ENSMEUG00000013702	2 retrocopies	retro_meug_1031, retro_meug_604,
Macaca mulatta	ENSMMUG00000015583	1 retrocopy	retro_mmul_233,
Monodelphis domestica	ENSMODG00000020456	4 retrocopies	retro_mdom_1476, retro_mdom_1638, retro_mdom_520, retro_mdom_724,
Mustela putorius furo	ENSMPUG00000017474	1 retrocopy	retro_mputfur_505,
Mus musculus	ENSMUSG00000058799	1 retrocopy	retro_mmus_263,
Nomascus leucogenys	ENSNLEG00000004682	4 retrocopies	retro_nleu_1192, retro_nleu_2085, retro_nleu_265, retro_nleu_2766,
Otolemur garnettii	ENSOGAG00000010319	4 retrocopies	retro_ogar_1278, retro_ogar_1281, retro_ogar_3357, retro_ogar_666,
Pan troglodytes	ENSPTRG00000005240	4 retrocopies	retro_ptro_1820, retro_ptro_582, retro_ptro_694, retro_ptro_819,
Pteropus vampyrus	ENSPVAG00000016032	2 retrocopies	retro_pvam_1282, retro_pvam_306,
Rattus norvegicus	ENSRNOG00000003890	1 retrocopy	retro_rnor_150,
Ictidomys tridecemlineatus	ENSSTOG00000003046	2 retrocopies	retro_itri_1007, retro_itri_416,
Vicugna pacos	ENSVPAG00000007290	3 retrocopies	retro_vpac_435, retro_vpac_441, retro_vpac_601,