RetrogeneDB ID: retro_ggor_825

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 12:93630612..93631797(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SUCLG2
• Ensembl ID: ENSGGOG00000027438
• Aliases: None
• Description: None

Sequence

>retro_ggor_825
ATGGCGTCCCCCATGGCAGCGCAGGCCTGGAAGCTTCTGCAAGCCCTAGCGCTGCTGCCCCGCTTCCTGGCGGCCAGGTC
CCGGGCAGTTCAATTAACCTCCAGAAGATGGCTGAGCCTGCAGGAATACCAGAGCAAGAAACTGATGTCTGATAACAGAG
TGAGAGTTCAAAGATTCTTTGTAGCAGACACTGCGAATGAAGCTCTCAAGGCCGCTAAGAGACTAAATGCAAAAGAAATT
GTTTTAAAAGCCCAGATCTTAGCTGGAGGAAGAGGAAAAGGTGTCTTCAATAGTGGTTTGAAAGGAGGTGTTCATTTAAC
AAAAGACCCTAATGTTGTGGGACAGCTGGCTAAACAGATGATTGGGTACAATCTAGCGACAAAACAAACTCCAAAAGAAG
GTGTGAAAGTTAACAAGGTGATGGTTGCTGAAGCCTTGGACATTTCCAGAGAAACCTACCTGGCAATTCTGATGGACCAG
TCCTGCAATGGTCCCGTGCTGGTGGGCAGCCCCTAGGAGGGCATTGACATTGAAGAGATGGCTGCTTCAAACCCAGAGCT
CATTTTTAAGGAGCAAATTGACATTTTTGAAGGAATAAAGGACAGCCAAGCTCAGCGGATGGCAGAAAATCTAGGCTTCG
TTGGGCCTTTGAAAAGCCAGGCTGCAGATCAAATTACGAAGCTGTATAATCTCTTCCTGAAAATTGATGCTACTCAGGTG
GAAGTGAATCCCTTTGGTGAAACTCCAGAAGGACAAGTTGTCTGTTTTGATGCCAAGATAAACTTTGATGACAATGCAGA
ATTCCAACAAAAAGACATATTTGCTATGGATGACAAATCAGAGAATGAGCCCATTGAAAATGAAGCTGCCAATTATGATC
TAAAATACATAGGACTAGATGGGAACATTGCCTGCTTTGTGAATGATGCTGGGCTCGCCATGGCTACTTGTGATATCATT
TTCCTTAATGGTGGGAAGCCAGCCAACTTCTTGGATCTTGGAGGTGGTGTAAAGGAAGCTCAAGTATATCAAGCATTCAA
ATTGCTCACAGCTGACCCTAAGGTTGAAGCCATCCTTGTCAATATTTTTGGTGGTATCGTCAACTGTGCCATCATTGCCA
ATGGGATCACCAAAGCCTGCCAGGAGCTAGAACTCAAGGTGCCCCTTGTGGTTTGGCTTGAAGGA

Alignment

ORF - retro_ggor_825 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.14 %
• Parental protein coverage: 89.77 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MASPVAAQAGKLLRALALRPRFLAAGSQAVQLTSRRWLNLQEYQSKKLMSDNGVRVQRFFVADTANEALE
          MASP.AAQA.KLL.ALAL.PRFLAA.S.AVQLTSRRWL.LQEYQSKKLMSDN.VRVQRFFVADTANEAL.
Retrocopy MASPMAAQAWKLLQALALLPRFLAARSRAVQLTSRRWLSLQEYQSKKLMSDNRVRVQRFFVADTANEALK

Parental  AAKRLNAKEIVLKAQILAGGRGKGVFNSGLKGGVHLTKDPNVVGQLAKQMIGYNLATKQTPKEGVKVNKV
          AAKRLNAKEIVLKAQILAGGRGKGVFNSGLKGGVHLTKDPNVVGQLAKQMIGYNLATKQTPKEGVKVNKV
Retrocopy AAKRLNAKEIVLKAQILAGGRGKGVFNSGLKGGVHLTKDPNVVGQLAKQMIGYNLATKQTPKEGVKVNKV

Parental  MVAEALDISRETYLAILMDRSCNGPVLVGSPQGGVDIEEVAASNPELIFKEQIDIFEGIKDSQAQRMAEN
          MVAEALDISRETYLAILMD.SCNGPVLVGSP..G.DIEE.AASNPE................QAQRMAEN
Retrocopy MVAEALDISRETYLAILMDQSCNGPVLVGSP*EGIDIEEMAASNPEXXXXXXXXXXXXXXXXQAQRMAEN

Parental  LGFVGPLKSQAADQITKLYNLFLKIDATQVEVNPFGETPEGQVVCFDAKINFDDNAEFRQKDIFAMDDKS
          LGFVGPLKSQAADQITKLYNLFLKIDATQVEVNPFGETPEGQVVCFDAKINFDDNAEF.QKDIFAMDDKS
Retrocopy LGFVGPLKSQAADQITKLYNLFLKIDATQVEVNPFGETPEGQVVCFDAKINFDDNAEFQQKDIFAMDDKS

Parental  ENEPIENEAAKYDLKYIGLDGNIACFVNGAGLAMATCDIIFLNGGKPANFLDLGGGVKEAQVYQAFKLLT
          ENEPIENEAA.YDLKYIGLDGNIACFVN.AGLAMATCDIIFLNGGKPANFLDLGGGVKEAQVYQAFKLLT
Retrocopy ENEPIENEAANYDLKYIGLDGNIACFVNDAGLAMATCDIIFLNGGKPANFLDLGGGVKEAQVYQAFKLLT

Parental  ADPKVEAILVNIFGGIVNCAIIANGITKACRELELKVPLVVRLEG
          ADPKVEAILVNIFGGIVNCAIIANGITKAC.ELELKVPLVV.LEG
Retrocopy ADPKVEAILVNIFGGIVNCAIIANGITKACQELELKVPLVVWLEG

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	12.85 RPM
SRP007412_cerebellum	0.00 RPM	9.46 RPM
SRP007412_heart	0.13 RPM	9.76 RPM
SRP007412_kidney	0.45 RPM	52.58 RPM
SRP007412_liver	0.18 RPM	30.62 RPM
SRP007412_testis	0.00 RPM	17.40 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_825 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_825 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000172340	1 retrocopy	retro_hsap_1044,
Gorilla gorilla	ENSGGOG00000008224	3 retrocopies	retro_ggor_1668, retro_ggor_1694, retro_ggor_2327,
Gorilla gorilla	ENSGGOG00000027438	1 retrocopy	retro_ggor_825 ,
Myotis lucifugus	ENSMLUG00000017294	1 retrocopy	retro_mluc_695,
Macaca mulatta	ENSMMUG00000009693	2 retrocopies	retro_mmul_1273, retro_mmul_1995,
Mus musculus	ENSMUSG00000061838	1 retrocopy	retro_mmus_3720,
Nomascus leucogenys	ENSNLEG00000007553	1 retrocopy	retro_nleu_915,
Otolemur garnettii	ENSOGAG00000006190	1 retrocopy	retro_ogar_161,
Pongo abelii	ENSPPYG00000013735	1 retrocopy	retro_pabe_2624,
Pteropus vampyrus	ENSPVAG00000004554	1 retrocopy	retro_pvam_912,