RetrogeneDB ID: retro_ggor_1036

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 14:23084694..23084966(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000025203
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MFSD2B
• Ensembl ID: ENSGGOG00000007752
• Aliases: None
• Description: Peptidyl-prolyl cis-trans isomerase [Source:UniProtKB/TrEMBL;Acc:G3QH78]

Sequence

>retro_ggor_1036
AAGAAGAGCCAGATGTGTGTAGTGCACTACATAGGGGTGTTCCAAAATGGGAATAAATTTGATTTATCCGAAGACAGAAA
CAAACCTTTCAAGTTCAAAACTGGTGAACAGGAAGTCATCAATGGTTTTGAAGAGTACATAGCACAGATGAGCTTGGGGC
AGAAGGTGAAGCTGACCTGCATATGTGATGTGTCATATAGAGCTCCAGGCTACTCTAGTATCATCCCTCCCAGTGCTACC
CTATCTTTGACATGGAATTGCTCAACTTAGAG

Alignment

ORF - retro_ggor_1036 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.57 %
• Parental protein coverage: 90.1 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KKGQTCVVHYTGMLQNGKKFDSSRDRNKPFKFRIGKQEVIKGFEEGAAQMSLGQRAKLTCTPDVAYGATG
          KK.Q.CVVHY.G..QNG.KFD.S.DRNKPFKF..G.QEVI.GFEE..AQMSLGQ..KLTC..DV.Y.A.G
Retrocopy KKSQMCVVHYIGVFQNGNKFDLSEDRNKPFKFKTGEQEVINGFEEYIAQMSLGQKVKLTCICDVSYRAPG

Parental  HPGVIPPNATL-IFDVELLNLE
          ....IPP.ATL.IFD.ELLNLE
Retrocopy YSSIIPPSATL<IFDMELLNLE

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	0.19 RPM	23.40 RPM
SRP007412_cerebellum	0.04 RPM	14.73 RPM
SRP007412_heart	0.00 RPM	0.50 RPM
SRP007412_kidney	0.04 RPM	1.76 RPM
SRP007412_liver	0.00 RPM	3.72 RPM
SRP007412_testis	0.00 RPM	0.83 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_1036 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1036 has 5 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1329
Pan troglodytes	retro_ptro_906
Pongo abelii	retro_pabe_1105
Macaca mulatta	retro_mmul_2171
Callithrix jacchus	retro_cjac_696

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000007752	1 retrocopy	retro_ggor_1036 ,
Oryctolagus cuniculus	ENSOCUG00000008793	6 retrocopies	retro_ocun_1455, retro_ocun_1518, retro_ocun_515, retro_ocun_603, retro_ocun_624, retro_ocun_960,