RetrogeneDB ID: retro_ggor_999

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 13:47456260..47457259(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000022721
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: LGMN
• Ensembl ID: ENSGGOG00000008256
• Aliases: None
• Description: None

Sequence

>retro_ggor_999
GACTACACTGGAGAAGATGTTACCCCACAAAATTTCCTTGCTGTGTTGAGAGGCAATGCGGAAGCGGTGAAGGGCATAGG
ATCCGGGAAAGTCCTGAAGAGCGGCCCCCAGGATCATGTATGTGTTCGTTTACTTCAGTGACCATGGATCTACTGGAATA
CTGGTTTTTCCCAATGAAGATCTTCATGTAAAGTACCTGAATGAGACCATCCATTACATGTACATACATAAAATGTACCA
AAAGATGGTGTTCCATATTGAAGCCTGTGAGTCTGGGTCCATGATGAACCACCTGCCTGGTGACACTAATGTTTATGCAA
CTACTGCTGCCAACCCCAGAGAGTCGTCCTACACCTGTTACTATGATGAGAAGAGGTCGACGTACCTGGGGGACTGGTAC
AGCGCCAACTGGATGGAAGACTCGGACGTGGAAGATCTGACTAACCAGACCCTGCACAAGCAGTACCACCTGGTAAAATC
ACACACCACTACCAGCCACATCATGCAGTACGGAAAAGAAACGATCTCCACATTAAAGTGATGCAGTTTCAGAGTATGAA
ACACAAAGCCAGTTCTTCTATCTCCCTGCCTCCAGTCACACACCTTGACCTCACCCCCAGCCCTGATGTGCTCTTGATGA
TCCTGAAAAGGAAACTGATGAACACCAACGATCTGGAGGACTCCAGGCAGCTCACAGAGGAGATCCATCGGCATCTGGAT
GCCAGGCACCTCATTGAGAAGTCAGTGCGCAAGATCCCCTCCTTGCTGGCAGCGTCCGAGGCTGAGGTGGAGGAGCTCCT
GTCTGAGAGAGCCCCGTTCACAGGGCATAGCTGCTACCTGGAGGCCCTGCTGCACTTCCAGACGTACTGCTTCAACTGGC
ACTCCCCCAAGTGCGAGTATGCGTTGAGACATTTGTACGTGCTGGCCAACCTTTGTGAGAAACCGTATCCGCTTCACAGG
ATAAAATTGTCCATGGACCACGTGTGCCTTGGTCGCTAC

Alignment

ORF - retro_ggor_999 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.57 %
• Parental protein coverage: 83. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  DYTGEDVTPQNFLAVLRGDAEAVKGIGSGKVL-KSGPQD-HVFIYFTDHGSTGILVFPNEDLHVKDLNET
          DYTGEDVTPQNFLAVLRG.AEAVKGIGSGKVL....P....VF.YF.DHGSTGILVFPNEDLHVK.LNET
Retrocopy DYTGEDVTPQNFLAVLRGNAEAVKGIGSGKVL>RAAPRIMYVFVYFSDHGSTGILVFPNEDLHVKYLNET

Parental  IHYMYKHKMYRKMVFYIEACESGSMMNHLPDNINVYATTAANPRESSYACYYDEKRSTYLGDWYSVNWME
          IHYMY.HKMY.KMVF.IEACESGSMMNHLP...NVYATTAANPRESSY.CYYDEKRSTYLGDWYS.NWME
Retrocopy IHYMYIHKMYQKMVFHIEACESGSMMNHLPGDTNVYATTAANPRESSYTCYYDEKRSTYLGDWYSANWME

Parental  DSDVEDLTKETLHKQYHLVKSHTNTSHVMQYGNKTISTMK-VMQFQGMKHKASSPISLPPVTHLDLTPSP
          DSDVEDLT..TLHKQYHLVKSHT.TSH.MQYG..TIST.K.VMQFQ.MKHKASS.ISLPPVTHLDLTPSP
Retrocopy DSDVEDLTNQTLHKQYHLVKSHTTTSHIMQYGKETISTLK<VMQFQSMKHKASSSISLPPVTHLDLTPSP

Parental  DVPLTIMKRKLMNTNDLEESRQLTEEIQRHLDARHLIEKSVRKIVSLLAASEAEVEQLLSERAPLTGHSC
          DV.L.I.KRKLMNTNDLE.SRQLTEEI.RHLDARHLIEKSVRKI.SLLAASEAEVE.LLSERAP.TGHSC
Retrocopy DVLLMILKRKLMNTNDLEDSRQLTEEIHRHLDARHLIEKSVRKIPSLLAASEAEVEELLSERAPFTGHSC

Parental  YPEALLHFRTHCFNWHSPTYEYALRHLYVLVNLCEKPYPLHRIKLSMDHVCLGHY
          Y.EALLHF.T.CFNWHSP..EYALRHLYVL.NLCEKPYPLHRIKLSMDHVCLG.Y
Retrocopy YLEALLHFQTYCFNWHSPKCEYALRHLYVLANLCEKPYPLHRIKLSMDHVCLGRY

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	38.75 RPM
SRP007412_cerebellum	0.04 RPM	23.88 RPM
SRP007412_heart	0.00 RPM	28.71 RPM
SRP007412_kidney	0.12 RPM	201.54 RPM
SRP007412_liver	0.00 RPM	104.80 RPM
SRP007412_testis	0.31 RPM	53.46 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_999 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_999 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000008256	1 retrocopy	retro_ggor_999 ,
Nomascus leucogenys	ENSNLEG00000017162	1 retrocopy	retro_nleu_704,