RetrogeneDB ID: retro_ggor_1011

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 13:79898312..79899963(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HSP90AB1
• Ensembl ID: ENSGGOG00000008889
• Aliases: None
• Description: None

Sequence

>retro_ggor_1011
ATGTCTGAGGAAGTACACCATGGAGAGGAGGAGGTGGAGACTTTTGCCTTTCAGACAGAAATTGCCCAACTCAGGTCTCT
TATTATCAATATTTTCTATTCCAACAAGCAGATTTTTCCTTCAAGAGTTGATTTCTAATGCTTCTGATGCCTTGGACAAG
ATTCTCTATGAGAGACTGGCAGACACTTACAAGTTGGACAGTGGTAAAGAGCTGAAAATTGACATCATGCCCAACCCTCA
GGAATACACCCTGACTTTGGTGGACACAGGCATTTGCATGACAAAGTTGATTTCATAAATAATTCAGGAACCACTGCCAA
GTCTGAGACTAAAGGATTTATGGAGGCTCTTCAGGCTGGTGCAGACATCTCCATGATTGTCAATTTGGTGTTGGCTTTCA
TTCTGCCTATCTGGTGGCAGAGAAAGTGGTTGTGATCACAAAGCACAATGATGATGAACAGTGAGCCTGGGAGTTTTCTG
GTGGGGGTTCCTTCACTGTATGTGCTGACCATGGCAGGGGTACCAAAATGATCCTCCACCTTAAAGAAAACCAGACAGAG
TACTTAGAAGAGAGATGGGTCAAAGACGCAGTGAAAAAGCACAGTTCATAGGCTAACCCATCACCCTCTATCTGAGAAAG
GAAAGAGAGAAGGAAATCAGTGATGATGAGGCAGAGGAAGAGAAAGGCAAGAAATAATAGGAAGATAAATATAATGAGGA
AAAACCCAAGATTGAAAATGTGGGTTCAAATGAGGAGGATGACAGTGGTAAGGATAAGAAAAAGAAAACCGAGAAGATTA
AAGAGAAATACATTAATCAGGAAGAACTAAACAAGATCAAGACTATTTGGACAAGAAACCATGATTACATCACCCAGGAG
TGTGGAGAATTCTGTAACAGCCACACTAATGACTGGGAAGACCACTTGGCAGTCAAGCACTTCTCTATAGAAGGTCAGTT
GGAATTTAGGGCGTTGTTGTTCATCCCGTATCGGGCTCCTTTTGACCTCTTTGAGAACAATAAGAATAAAGACACCATCA
AACTCTACGTCCTTCATGTGTTCATCGTGCACAGCTGTGATGAGTTGATACCAGAGGATCTCAACTTTATCTGTGGTATG
GTTGACTCCGAGGATCTACCCCTGAACATTTGAGAAATGCTCCAGGAGAGCAAAATCTTGAAAGCCATTCACAGAAACAT
TGTTAACTGGTGCCTTGAGCTCTTCTCTGAGTTGGCAGAAGACAAAGAGAGTTACAAGAAATTCTATGAGGCATTCTCTA
AAAATCTAATGTTTGGAATCCCCGAGGACTCCCCTAACTGGTGACACCTGTCTGAGCTGCTGCACTTTCACAGCTCCCAG
TCTGGAGATGGGATGACATCTCTGTTAGAATATGTCTCTTGCATGAAGGAGACACGGAAATCCACCTACTACATCACTGT
TGAGAGCAACGAACAGGTGGCCAGCTCTGCTTTCGTGGAGTGAGTGCGGAAGCAGGCCTTTGAGGTAGTGCATATGACTA
ACCCCACCGATGAGTACCGCATGCAGCAGCTCAAGGAGTTTGATGGGAAGTGCCTCATCTCAGTTACCAAGGAGGGTCTG
GAGCTACCAGAGGGTGAGGAGGAAGAAAATGGAAGAGTGCAAGGTGAAGCT

Alignment

ORF - retro_ggor_1011 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.16 %
• Parental protein coverage: 77.07 %
• Number of stop codons detected: 8
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  MPEEVHHGEEEVETFAFQAEIAQLMSLIINTFYSNKEIF-LRELISNASDALDKIRYESLTDPSKLDSGK
          M.EEVHHGEEEVETFAFQ.EIAQL.SLIIN.FYSNK.IF.L.ELISNASDALDKI.YE.L.D..KLDSGK
Retrocopy MSEEVHHGEEEVETFAFQTEIAQLRSLIINIFYSNKQIF>LQELISNASDALDKILYERLADTYKLDSGK

Parental  ELKIDIIPNPQERTLTLVDTGIGMT-KADLINNLGTIAKSGTKAFMEALQAGADISMI-GQFGVGFYSAY
          ELKIDI.PNPQE.TLTLVDTGI.MT.K.D.INN.GT.AKS.TK.FMEALQAGADISMI..QFGVGF.SAY
Retrocopy ELKIDIMPNPQEYTLTLVDTGICMT<KVDFINNSGTTAKSETKGFMEALQAGADISMI<CQFGVGFHSAY

Parental  LVAEKVVVITKHNDDEQYAWESSAGGSFTVRADHGEPIGRGTKVILHLKEDQTEYLEERRVKEVVKKHSQ
          LVAEKVVVITKHNDDEQ.AWE.S.GGSFTV.ADHG....RGTK.ILHLKE.QTEYLEER.VK..VKKHS.
Retrocopy LVAEKVVVITKHNDDEQ*AWEFSGGGSFTVCADHG----RGTKMILHLKENQTEYLEERWVKDAVKKHSS

Parental  FIGYPITLYLEKEREKEI-SDDEAEEEKGEKEEEDKDDEEKPKIEDVGSDEEDDSGKDKKKKTKKIKEKY
          ...........KER.K....D..AEEEKG.K..EDK..EEKPKIE.VGS.EEDDSGKDKKKKT.KIKEKY
Retrocopy *ANPSPSI*ERKERRKSV<DDE-AEEEKGKK**EDKYNEEKPKIENVGSNEEDDSGKDKKKKTEKIKEKY

Parental  IDQEELNKTKPIWTRNPDDITQEEYGEFYKSLTNDWEDHLAVKHFSVEGQLEFRALLFIPRRAPFDLFEN
          I.QEELNK.K.IWTRN.D.ITQ.E.GEF..S.TNDWEDHLAVKHFS.EGQLEFRALLFIP.RAPFDLFEN
Retrocopy INQEELNKIKTIWTRNHDYITQ-ECGEFCNSHTNDWEDHLAVKHFSIEGQLEFRALLFIPYRAPFDLFEN

Parental  KKKKNNIKLYVRRVFIMDSCDELIPEYLNFIRGVVDSEDLPLNISREMLQQSKILKVIRKNIVKKCLELF
          .K.K..IKLYV..VFI..SCDELIPE.LNFI.G.VDSEDLPLNI..EMLQ.SKILK.I..NIV..CLELF
Retrocopy NKNKDTIKLYVLHVFIVHSCDELIPEDLNFICGMVDSEDLPLNI-*EMLQESKILKAIHRNIVNWCLELF

Parental  SELAEDKENYKKFYEAFSKNLKLGIHEDSTNRRRLSELLRYHTSQSGDEMTSLSEYVSRMKETQKSIYYI
          SELAEDKE.YKKFYEAFSKNL..GI.EDS.N...LSELL..H.SQSGD.MTSL.EYVS.MKET.KS.YYI
Retrocopy SELAEDKESYKKFYEAFSKNLMFGIPEDSPNW*HLSELLHFHSSQSGDGMTSLLEYVSCMKETRKSTYYI

Parental  TGESKEQVANSAFVERVRKRGFEVVYMTEPIDEYCVQQLKEFDGKSLVSVTKEGLELPEDEEEKKKMEES
          T.ES.EQVA.SAFVE.VRK..FEVV.MT.P.DEY..QQLKEFDGK.L.SVTKEGLELPE.EEE.......
Retrocopy TVESNEQVASSAFVE*VRKQAFEVVHMTNPTDEYRMQQLKEFDGKCLISVTKEGLELPEGEEEENGRVQG

Parental  KA
          .A
Retrocopy EA

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	1293.27 RPM
SRP007412_cerebellum	0.00 RPM	663.62 RPM
SRP007412_heart	0.00 RPM	370.98 RPM
SRP007412_kidney	0.00 RPM	681.82 RPM
SRP007412_liver	0.00 RPM	404.90 RPM
SRP007412_testis	0.00 RPM	571.04 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_1011 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1011 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Pan troglodytes	retro_ptro_880
Macaca mulatta	retro_mmul_1319

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000001981	4 retrocopies	retro_cfam_1108, retro_cfam_411, retro_cfam_562, retro_cfam_881,
Felis catus	ENSFCAG00000009764	1 retrocopy	retro_fcat_1177,
Gorilla gorilla	ENSGGOG00000008889	2 retrocopies	retro_ggor_1011 , retro_ggor_701,
Macropus eugenii	ENSMEUG00000013735	1 retrocopy	retro_meug_1896,
Myotis lucifugus	ENSMLUG00000005239	2 retrocopies	retro_mluc_1604, retro_mluc_865,
Mus musculus	ENSMUSG00000023944	3 retrocopies	retro_mmus_1916, retro_mmus_3528, retro_mmus_856,
Otolemur garnettii	ENSOGAG00000011961	1 retrocopy	retro_ogar_2574,
Pongo abelii	ENSPPYG00000016655	2 retrocopies	retro_pabe_2425, retro_pabe_415,
Pan troglodytes	ENSPTRG00000018217	4 retrocopies	retro_ptro_1850, retro_ptro_1968, retro_ptro_2003, retro_ptro_880,
Tupaia belangeri	ENSTBEG00000014873	1 retrocopy	retro_tbel_1428,