RetrogeneDB ID: retro_ggor_598

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 10:93721470..93722016(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FARSB
• Ensembl ID: ENSGGOG00000017051
• Aliases: None
• Description: None

Sequence

>retro_ggor_598
GGATTCACTGAAGCACTCACCTTTGCTCTCTGCTCCAAGAGGATATTTCTGATAAACTTGTTTTGGATTATGTCTGCAAC
AAAAGCAGTCCACATAAGTAAAACTAAAACAGTTCAATTACAGGTGGCATTCATTACCCTTCTTCTTGGTGCTCTGAAGA
CCATAGAAACAAATCAGAAGATGCTCCTTCCTCTGAAACTATTTGAAATCTCTAACATTGTAATAAAAGATTCTAGCAGA
GATGTAGGTACAAAAAACTATGGCCATCTCTTTGCTGTTCATTACAACAAGAATCCTGGGTTTAAGGTCATCCATATGCA
TCTGGACAGAATTACACAGCTGCGCAATGTACCTCCTGTTGAAAATAAAGGGGGATATGTGATCAAATCATCAAAAGAAA
CCGCTTTCTTCCCTGGGCAATGCACAGAGATCTTTGCCAGGAGTCAAAATGTCAGGAAGCTTGGAGTTCTTCATCCTGAT
GTTATCACCAAATTTGAGCTGACCATTCCCTGTTCCTCCCTGGAAGTCAATATTGAGCCCTTTTTG

Alignment

ORF - retro_ggor_598 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.91 %
• Parental protein coverage: 59.09 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GFTEALTFALCS-QEDIADKLGVD-ISATKAVHISNPKTAEFQVARTTLLPGLLKTIAANRKMPLPLKLF
          GFTEALTFALCS.QEDI.DKL..D..SATKAVHIS..KT...QVA..TLL.G.LKTI..N.KM.LPLKLF
Retrocopy GFTEALTFALCS<QEDISDKLVLD>MSATKAVHISKTKTVQLQVAFITLLLGALKTIETNQKMLLPLKLF

Parental  EISDIVIKDPNTDVGAKNYRHLCAVYYNKNPGFEIIHGLLDRIMQLLDVPPGEDKGGYVIKASEGPAFFP
          EIS.IVIKD...DVG.KNY.HL.AV.YNKNPGF..IH..LDRI.QL..VPP.E.KGGYVIK.S...AFFP
Retrocopy EISNIVIKDSSRDVGTKNYGHLFAVHYNKNPGFKVIHMHLDRITQLRNVPPVENKGGYVIKSSKETAFFP

Parental  GRCAEIFARGQSVGKLGVLHPDVITKFELTMPCSSLEINIGPFL
          G.C.EIFAR.Q.V.KLGVLHPDVITKFELT.PCSSLE.NI.PFL
Retrocopy GQCTEIFARSQNVRKLGVLHPDVITKFELTIPCSSLEVNIEPFL

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	22.20 RPM
SRP007412_cerebellum	0.00 RPM	13.83 RPM
SRP007412_heart	0.03 RPM	7.29 RPM
SRP007412_kidney	0.04 RPM	18.85 RPM
SRP007412_liver	0.00 RPM	16.04 RPM
SRP007412_testis	0.00 RPM	37.40 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_598 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_598 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000011649	1 retrocopy	retro_btau_1451,
Felis catus	ENSFCAG00000026772	1 retrocopy	retro_fcat_1179,
Gorilla gorilla	ENSGGOG00000017051	1 retrocopy	retro_ggor_598 ,
Pteropus vampyrus	ENSPVAG00000006985	1 retrocopy	retro_pvam_804,