RetrogeneDB ID: retro_ggor_2485

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 6:146410544..146411649(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000024109
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ZNF131
• Ensembl ID: ENSGGOG00000002252
• Aliases: None
• Description: None

Sequence

>retro_ggor_2485
ATGAAAGCCCTTGAAGTCAGGAACAAAGAAAACTCAGCTCCATTAGAGGAAAATACCACAAGAAAAAAGGTGGCCAAATA
AAAGGAAGATTGCAGCAACTTCAAATGTTATCACAGAATCATTGCCATCTGCAGAATCAGAACCTGTTGAAATTGAGATA
GAGATTGCTGAAGGCACAATTGAAGCGAAGATGAAGGCATTAAAACATTAGAGGAAGTGGATTCTGCCAAACATCCATAA
AGTACACACAGAACACTAGTTCCTCTAATGATTCTGCTCTAGCACTGTTGGCAGATATTACCAGCAAGTATCATCAAAGT
GACAGAAAAGGGCAGATTAAAGAAGAAGATGGCCATGCATCTGACCCTACAAGCATACAGGTAGAAAGTATTGAAACTAT
GGAACGTCAGTTGTCACATGTGAAGGACTTGTTCCATTGTGAGAAATGTAATGGTTCATTTAAATTGTTTTATCATTTGA
AGGAACGCATGAAATCACACTCTACTGAGAGTTTCAAGTGTGAAATATGCAATGAAAGGTATCTTTGGGAGAGCACATGG
AAACAGCACCTAAATTGTTACCATCTTGAAGAAGGTGGAGTCACTAAGAAGCAAAGAACTGGGAAGAAAGTTTATGTATG
TCAGTACTGTGAGAAGCAGTTTGACTGTTCTGGACATTTTAAAGAACATCTTAGAAAACATACAGGTGAAAAACCTTTTG
AATGTCCAAATTGTCATGAAAGATTTGCTAGAAATAGCACCCTCAAATGTCACCTCACTGCATGCCAAACTGGAGTAGAG
GCAAAAAAGGAAGAAAGAAGCTCTATAAATGCCATGTCTGCAACAGTGTGTTTAACAGCTGGGACCAGTTCAAAGATCAC
TTGGTAATACACACTGGGTGTAAACCCAACTATTGTTCGTTATGTGACTTGTGGTTTATGCAAGGAAGTAAATTAATGAG
GCATCTCAGTGACACTATTTCAGAGCGTCTAGTAATGGAAGAAGTTCTTTCAGTAGAAACGTGTGCAAACTGAACCTGTG
ACATATCAATGACTATTATAGAACAAATTGGGAAGGTGCGTGTGCTACCATTGCTTCAGGTCCAG

Alignment

ORF - retro_ggor_2485 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.93 %
• Parental protein coverage: 59.39 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  IKALEVRNKENSAPLEENTTGKNEAK-KRKIAETSNVITESLPSAESEPVEIEVEIAEGTIEV-EDEGIE
          .KALEVRNKENSAPLEENTT.K..AK.KRKIA.TSNVITESLPSAESEPVEIE.EIAEGTIE..EDEGI.
Retrocopy MKALEVRNKENSAPLEENTTRKKVAK>KRKIAATSNVITESLPSAESEPVEIEIEIAEGTIEA<EDEGIK

Parental  TLEGVASAKQ-SVKYIQSTGSSDDSALALLADITSKYRQGDRKGQIKE-DGCPSDPTSKQVEGIEIVELQ
          TLE.V.SAK..S.KY.Q.T.SS.DSALALLADITSKY.Q.DRKGQIKE.DG..SDPTS.QVE.IE..E.Q
Retrocopy TLEEVDSAKH<SIKYTQNTSSSNDSALALLADITSKYHQSDRKGQIKEEDGHASDPTSIQVESIETMERQ

Parental  LSHVKDLFHCEKCNRSFKLFYHFKEHMKSHSTESFKCEICNKRYLRESAWKQHLNCYHLEEGGVSKKQRT
          LSHVKDLFHCEKCN.SFKLFYH.KE.MKSHSTESFKCEICN.RYL.ES.WKQHLNCYHLEEGGV.KKQRT
Retrocopy LSHVKDLFHCEKCNGSFKLFYHLKERMKSHSTESFKCEICNERYLWESTWKQHLNCYHLEEGGVTKKQRT

Parental  GKKIHVCQYCEKQFDHFGHFKEHLRKHTGEKPFECPNCHERFARNSTLKCHLTACQTGVGA-KKGRKKLY
          GKK..VCQYCEKQFD..GHFKEHLRKHTGEKPFECPNCHERFARNSTLKCHLTACQTGV.A.KKGRKKLY
Retrocopy GKKVYVCQYCEKQFDCSGHFKEHLRKHTGEKPFECPNCHERFARNSTLKCHLTACQTGVEA<KKGRKKLY

Parental  ECQVCNSVFNSWDQFKDHLVIHTGDKPNHCTLCDLWFMQGNELRRHLSDAHNISERLVTEEVLSVETHVQ
          .C.VCNSVFNSWDQFKDHLVIHTG.KPN.C.LCDLWFMQG..L.RHLSD...ISERLV.EEVLSVET...
Retrocopy KCHVCNSVFNSWDQFKDHLVIHTGCKPNYCSLCDLWFMQGSKLMRHLSD--TISERLVMEEVLSVETCAN

Parental  TEPVTSMTIIEQVGKVHVLPLLQVQ
          .....SMTIIEQ.GKV.VLPLLQVQ
Retrocopy *TCDISMTIIEQIGKVRVLPLLQVQ

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	11.51 RPM
SRP007412_cerebellum	0.04 RPM	15.29 RPM
SRP007412_heart	0.00 RPM	1.91 RPM
SRP007412_kidney	0.00 RPM	7.44 RPM
SRP007412_liver	0.00 RPM	6.36 RPM
SRP007412_testis	0.00 RPM	59.57 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_2485 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2485 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000001280	1 retrocopy	retro_cjac_2484,
Cavia porcellus	ENSCPOG00000011858	1 retrocopy	retro_cpor_350,
Gorilla gorilla	ENSGGOG00000002252	1 retrocopy	retro_ggor_2485 ,
Ictidomys tridecemlineatus	ENSSTOG00000015383	1 retrocopy	retro_itri_1485,
Tursiops truncatus	ENSTTRG00000009644	1 retrocopy	retro_ttru_418,