RetrogeneDB ID: retro_ggor_701

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 11:28297957..28299283(-)
• 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_701
AACAAAACAAAGCCCATCTGGACCAGAAATCCCGACGATATTACTAATGAGGAGTAGGGAGAATTCTACAAGAACTTGAC
CAATGACTGGGAAGATCGCTTGGCAGTGAAGCATTTTTCAGTTGAAGAACGGTTGGAATTCAGAGCCCTTCTATTTGTCC
CATGACATGCTCCTTTTGACCTATTTGAAAACAGAAAGAAAAAGAACAACATCAAATTGTATGTACGCAGAGTTTTCATC
ATGGATAACTGTGAGGAGCTAATCCCTGAATATCTGAACTTCATTAGAGGGGTGGTAGACTCGGAGGATCTCCCTCTAAA
CATTTCCCATGAGATGTTGCAACAAAGTAAAATTTTGAAAGTTATCAGGAAAAATTTGGTCAAAAAATGCTTAGAACTGT
TTACAGAACTGGCGGAAGATAAAGAGAACTGCAAGAAATTCTATGAGCAGTTCTCTAAAAACATTAAGCTTGGAATACAC
GAAGACTCTCAAAATCGGAAGAAGCTTTCAGAGCTGTTAAGGTACTATACGTCTGCCTCTGGTGATGAGATGGTTTCTCT
CAAGGACTACTGCACCAGAATGAAGGAAAAACAGAAATGTATCTATTATATCACAGGTGAGACCAAGGGCCAGGTAGCTA
ACTCAGCCTTTGTGGAACTTCTTGGGAAACATGGCTTAGAAGTGATCTATATGATTGAGCCCATTGATGAGTACTGTGTC
CAACAGCTGAAGGAATTTGAGGGGAAGACTTTAGTGTCAGTCACCAAAGAAGTCCTGGAACTTCCAGAGGATGAAGAAAA
GAAAAAGAAATAGGAAGAGAAAAAAACAATGTTTGAGAACCTCTGCAAAATCATGAAAGACATATTGGAGAAAAAAGTTG
AAAAGGTGGTTGTGTCAAACCGATTGGTGACGTCTCCATGCTGTATTGTCACAAGCACATATGGCTGGACAGCAAACATG
GAGAGAATCATGAAAGCTCAAGCCCTAAGAGACAACTCAACAATGGGTTATATGGCAGCCAAGAAACACCTGGAGATAAA
TCCTGACGATTCCATTATTGAGACCTTAAGGCAAAAGGCAGAGGCTGATAAGAATGACAAGTCTGTGAAGGATCTGGTCA
TCTTGCTTTACAAAACTGCACTCCTGCCTTCTGGCTTCAGTCTGGAAGATCCCCAGACACATGCTAACAGGACCTACAGG
ATGATCAAACTTGGTCTGGGTATTGATGAAGATGATCCTACTGCTGATGATACCAGTGCTGCTGTAACTGAAGAAATGCC
GCCCCTCGAAGGAAATGACGACACATCACGCATGGAAGAAGTAGAC

Alignment

ORF - retro_ggor_701 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.0 %
• Parental protein coverage: 61.05 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NKTKPIWTRNPDDITQEEYGEFYKSLTNDWEDHLAVKHFSVEGQLEFRALLFIPRRAPFDLFENKKKKNN
          NKTKPIWTRNPDDIT.EE.GEFYK.LTNDWED.LAVKHFSVE..LEFRALLF.P..APFDLFEN.KKKNN
Retrocopy NKTKPIWTRNPDDITNEE*GEFYKNLTNDWEDRLAVKHFSVEERLEFRALLFVP*HAPFDLFENRKKKNN

Parental  IKLYVRRVFIMDSCDELIPEYLNFIRGVVDSEDLPLNISREMLQQSKILKVIRKNIVKKCLELFSELAED
          IKLYVRRVFIMD.C.ELIPEYLNFIRGVVDSEDLPLNIS.EMLQQSKILKVIRKN.VKKCLELF.ELAED
Retrocopy IKLYVRRVFIMDNCEELIPEYLNFIRGVVDSEDLPLNISHEMLQQSKILKVIRKNLVKKCLELFTELAED

Parental  KENYKKFYEAFSKNLKLGIHEDSTNRRRLSELLRYHTSQSGDEMTSLSEYVSRMKETQKSIYYITGESKE
          KEN.KKFYE.FSKN.KLGIHEDS.NR..LSELLRY.TS.SGDEM.SL..Y..RMKE.QK.IYYITGE.K.
Retrocopy KENCKKFYEQFSKNIKLGIHEDSQNRKKLSELLRYYTSASGDEMVSLKDYCTRMKEKQKCIYYITGETKG

Parental  QVANSAFVERVRKRGFEVVYMTEPIDEYCVQQLKEFDGKSLVSVTKEGLELPEDEEEKKKMEESKAKFEN
          QVANSAFVE...K.G.EV.YM.EPIDEYCVQQLKEF.GK.LVSVTKE.LELPED.............FEN
Retrocopy QVANSAFVELLGKHGLEVIYMIEPIDEYCVQQLKEFEGKTLVSVTKEVLELPEDXXXXXXXXXXXXMFEN

Parental  LCKLMKEILDKKVEKVTISNRLVSSPCCIVTSTYGWTANMERIMKAQALRDNSTMGYMMAKKHLEINPDH
          LCK.MK.IL.KKVEKV..SNRLV.SPCCIVTSTYGWTANMERIMKAQALRDNSTMGYM.AKKHLEINPD.
Retrocopy LCKIMKDILEKKVEKVVVSNRLVTSPCCIVTSTYGWTANMERIMKAQALRDNSTMGYMAAKKHLEINPDD

Parental  PIVETLRQKAEADKNDKAVKDLVVLLFETALLSSGFSLEDPQTHSNRIYRMIKLGLGIDEDEVAAEEPSA
          .I.ETLRQKAEADKNDK.VKDLV.LL..TALL.SGFSLEDPQTH.NR.YRMIKLGLGIDED...A...SA
Retrocopy SIIETLRQKAEADKNDKSVKDLVILLYKTALLPSGFSLEDPQTHANRTYRMIKLGLGIDEDDPTADDTSA

Parental  AVPDEIPPLEGDEDASRMEEVD
          AV..E.PPLEG..D.SRMEEVD
Retrocopy AVTEEMPPLEGNDDTSRMEEVD

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	286.96 RPM	1293.27 RPM
SRP007412_cerebellum	135.25 RPM	663.62 RPM
SRP007412_heart	34.40 RPM	370.98 RPM
SRP007412_kidney	179.75 RPM	681.82 RPM
SRP007412_liver	95.59 RPM	404.90 RPM
SRP007412_testis	649.16 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_701 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_701 has 0 orthologous retrocopies within eutheria group .

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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,