RetrogeneDB ID: retro_ggor_645

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 11:46887634..46888237(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000022317
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: FBLIM1
• Ensembl ID: ENSGGOG00000015190
• Aliases: None
• Description: None

Sequence

>retro_ggor_645
CCCGCTTCACCGCCCCCGCCGGTGCTCCTGCCTTCTGAAGACGAGGCTCCTGCTCCAATGGGGGCCTCACTTATTGCGGA
CTTAGAGCAGCTGCACCTGCCCCCGTCCCCACCCCCACCACAGGCCCCTGCGGAGAGACCTTCAGTCCAGCCTGGGCCGG
ATCCCTTCAGGCCCGTGGAAAAAGAGCTGCTGCCTCCCCCAGCAGAGCCTGTTGAGAGAGAGGCGTCCACAGACATCCGT
GCCTTCTGCCATAAGACTGTGTCCCCCCAGGAGCTGGCTGCGGAGGCCATGAAGAGGCAGTACCATGTCCAGTTCTTCAC
GTGCCGTACCTGCCGCCGCCAGCTGGCTGGGCAGAGCTTCTATCAGAAGGATATACGACCCCTCTGCGAACCCTGCTGCC
AGGACACGCTGCAGAAGTGCAGCAAGTGTGGCGAGGTGGTCCGGGAGCACATCATCAGGGCCCCGGGCCAGGCCTTCCAC
CCCGCCTGCTTCACGTGTGTGACCTGCGCCCGGTGCATCGGGGATGAGAGCTTTGCCCCGGGCAGCCAGAACGAGGTGTA
CTGCCTGGACGACTTCTGCAGGAAATTTGCCCCCGTCTGCAGC

Alignment

ORF - retro_ggor_645 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.09 %
• Parental protein coverage: 53.21 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PPPPPPPVLLPSEEEPPTPMGASLIADLEQLHLSPPPPPPQAPAEGPSVQPGP--LRPVEEELPPPPAEP
          P..PPPPVLLPSE.E.P.PMGASLIADLEQLHL.P.PPPPQAPAE.PSVQPGP...RPVE.EL.PPPAEP
Retrocopy PASPPPPVLLPSEDEAPAPMGASLIADLEQLHLPPSPPPPQAPAERPSVQPGPDPFRPVEKELLPPPAEP

Parental  VEKGASTDICAFCHKTVSPRELAVEAMKRQYHAQCFTCRTCRRQLAGQSFYQKDGRPLCEPCYQDTLERC
          VE..ASTDI.AFCHKTVSP.ELA.EAMKRQYH.Q.FTCRTCRRQLAGQSFYQKD.RPLCEPC.QDTL..C
Retrocopy VEREASTDIRAFCHKTVSPQELAAEAMKRQYHVQFFTCRTCRRQLAGQSFYQKDIRPLCEPCCQDTLQKC

Parental  GKCGEVVRDHIIRALGQAFHPSCFTCVTCARCIGDESFALGSQNEVYCLDDFYRYEKGLCT
          .KCGEVVR.HIIRA.GQAFHP.CFTCVTCARCIGDESFA.GSQNEVYCLDDF.R.....C.
Retrocopy SKCGEVVREHIIRAPGQAFHPACFTCVTCARCIGDESFAPGSQNEVYCLDDFCRKFAPVCS

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	0.86 RPM
SRP007412_cerebellum	0.00 RPM	1.85 RPM
SRP007412_heart	0.00 RPM	6.63 RPM
SRP007412_kidney	0.00 RPM	3.07 RPM
SRP007412_liver	0.00 RPM	2.77 RPM
SRP007412_testis	0.00 RPM	2.18 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_645 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_645 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000018725	1 retrocopy	retro_btau_1013,
Homo sapiens	ENSG00000162458	2 retrocopies	retro_hsap_4898, retro_hsap_778,
Gorilla gorilla	ENSGGOG00000015190	2 retrocopies	retro_ggor_3058, retro_ggor_645 ,
Macaca mulatta	ENSMMUG00000032243	2 retrocopies	retro_mmul_1095, retro_mmul_2635,
Pongo abelii	ENSPPYG00000001837	2 retrocopies	retro_pabe_3809, retro_pabe_751,
Pan troglodytes	ENSPTRG00000000208	2 retrocopies	retro_ptro_3266, retro_ptro_544,
Pteropus vampyrus	ENSPVAG00000009000	1 retrocopy	retro_pvam_415,