RetrogeneDB ID: retro_ggor_2037

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 4:71597299..71598037(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: LARP1B
• Ensembl ID: ENSGGOG00000015900
• Aliases: None
• Description: None

Sequence

>retro_ggor_2037
CACTCAGATGATGTAAGACCAGAGAGTCAAGAAAGACCGGGATCCTGGAACAGCTCAAGATGTCAACCTGAAGCAAGTAA
ACCAACACATAACAATAGGAGAAATGATACATGAAATTGGAAGCAAGATAGAGAAAAAAGAGATGATCAGTATCAAGTTT
CCAGTGTGAGAAGTGAGGGTGGTAATATCTGAGTTTCCTTTAGAGGCCAAGGAAGAGGCCGAGGACGGGGAAGAGGACGA
GGCAGAGCAAATCCTCGGTTGAACTTTGATTATTTATATGGTTATCAAGAACATGGTGAAAGGACTGTTCAGCCATTTCA
AACAGAACTTAATACCAGTATGATGCATTACTAAGATGATGGTACAAGTGTACAGGTGTATCTTGTGGAAGAAGCATTGC
TTAAAGAGTGTATTAAACGTCAAATTGAATATTACTTCAATGTAGAAAATTTGGAACGAGACTACTTTCTTTGAGGAAAG
AGGGGTGAACAAGGTTTCTTGCATATTTTCCTGATTGCTGCTTTCCAACGTGTTCAGGCTCTCACTAGAAACCTTATCTC
AGAGGCACTGAAGGATAGCACAGAAGTAGAAATTGTGAATGAAAAAATGAGAAAAAAGATAGAACCAGAAAAATGGCCAA
TTCCAGACCCTCCTCCATGCGACGTGCCATGAACAGACTTCTCTCAACTGATTTACTGTCCAGAGTTTGTACCAGGCCAA
GCCTTTTGCTCACATACA

Alignment

ORF - retro_ggor_2037 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.8 %
• Parental protein coverage: 74.18 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  HLDVVRSESQERPGSRNSSRCQPEANKPTHNNRRNDTRSWKRDREKRDDQDDVSSVRSEGGNIRGSFRGR
          H.D.VR.ESQERPGS.NSSRCQPEA.KPTHNNRRNDT..WK.DREKRDDQ..VSSVRSEGGNI..SFRG.
Retrocopy HSDDVRPESQERPGSWNSSRCQPEASKPTHNNRRNDT*NWKQDREKRDDQYQVSSVRSEGGNI*VSFRGQ

Parental  GRGRGRGRGRGRGNPRYQVNFDYSYGYQEHGERTDQPFQTELNTSMMYYYDDGTGVQVYPVEEALLKEYI
          GRGRGRGRGRGR.NPR...NFDY.YGYQEHGERT.QPFQTELNTSMM.Y.DDGT.VQVY.VEEALLKE.I
Retrocopy GRGRGRGRGRGRANPR--LNFDYLYGYQEHGERTVQPFQTELNTSMMHY*DDGTSVQVYLVEEALLKECI

Parental  KRQMEVHISQKNLSSGLFLEMLSTSFFFLFVLLYIVTHKIRDVLNYIQHVLQALKDSTEVEIVDEKMRKK
          KRQ.E......NL....FL........FL...L...................ALKDS.............
Retrocopy KRQIEYYFNVENLERDYFL*GKRGEQGFLHIFLIAAFQRVQALTRNL--ISEALKDSXXXXXXXXXXXXX

Parental  IEPEKWPIPGPPPRSVPPTDFSQLIDCPEFVPGQAFCSHT
          .....WPIP.PPP..VP.TDFSQLI.CPEFVPGQAFCSHT
Retrocopy XXXXXWPIPDPPPCDVP*TDFSQLIYCPEFVPGQAFCSHT

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	0.10 RPM	5.71 RPM
SRP007412_cerebellum	0.16 RPM	4.69 RPM
SRP007412_heart	0.00 RPM	1.75 RPM
SRP007412_kidney	0.49 RPM	10.10 RPM
SRP007412_liver	0.16 RPM	7.99 RPM
SRP007412_testis	4.77 RPM	68.27 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_2037 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2037 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	ENSGGOG00000015900	1 retrocopy	retro_ggor_2037 ,
Mus musculus	ENSMUSG00000037814	1 retrocopy	retro_mmus_3232,