RetrogeneDB ID: retro_ggor_3058

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: X:122677462..122678377(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

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

Sequence

>retro_ggor_3058
ATGGCCTCAAAGCCTGAGAAGAGTGTGGCATCATCTGTCTTTATCACCCTTGCACCCCTGTGCCGCGATTTAGCTGTGGT
TGAGGAAGGGAGGCAGGCGGTTTGTGAGGCCTGATGTGGCCTCCCCTGGGAGGCTCCTGCCCCCATGAAGGCACCCGGAG
CTGGCTTAGCGGGAAAGCCCAGCCCCTGGGCACCCCCTGGCAGGGCTGCAGCCACAGTGCCAGCTGCACCTCTGCAGCTC
TCCAATGGAGGATGCTCACCCCCTCCTCCTGTCCTGGATGGTGAGGACGCACTTCCTGACCTGGACCTCATCCCACCCCC
TCCACTGCCCCCTCCGGTGCTCCTGTCTTCTGAAGAAGAGGCTCCTGCTCCAGTGGGGGCCTCACTCATTGCAGACTTAG
AGCAGTTGCACCTGCCCTCGCCCCCAACCCGACCACAGGCCCTGGTGGAGGGACCTTCAGTCCAGCCTGGGCCCAGTCCC
CTCAGGCCTGGGGAGGAAGAGCTTCCGCCTTCCCCAGCAGAGCCTGTTGAGAGAGAGTCGTCCACAGACATCTGTGCCTT
CTGCCACAAAACCGTGTCCCCCCAAGAGCTGGCTGTGGAGGCCATAAAGAGGCAGTACCATGCCCAGTGCTTCACGTGGC
ACACCTGCCACCGCCAGCTGGCTGCGCAGAGCTTCTACCAGGATGGGCGACCCCTCTGCGAACCCTGCTACCAGGACACG
CTGGAGAAGTGCGGCAAGTGTGGCCAGGTGGTCCGGGAGCACATCATCAGGGCCCTGGGCCAGGCCTTCCACCCCTCCTG
CTTCATGTGTGTGACCTATGCCCGGTGCATCCAGGATGAGAGCTTTGCCCTGGGCAGCCAAAACGAGATGTACTGCCTAG
ACGAATTCTACAAGAAATTCGCCCCCGTATGCAGC

Alignment

ORF - retro_ggor_3058 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.72 %
• Parental protein coverage: 81.28 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MASKPEKRVASSVFITLAPPRRDVAVAEEVRQAVCEARRGRPWEAPAPMKTPEAGLVGRPSPWTTPGRAA
          MASKPEK.VASSVFITLAP..RD.AV.EE.RQAVCEA..G.PWEAPAPMK.P.AGL.G.PSPW..PGRAA
Retrocopy MASKPEKSVASSVFITLAPLCRDLAVVEEGRQAVCEA*CGLPWEAPAPMKAPGAGLAGKPSPWAPPGRAA

Parental  ATVPAAPMQLSNGGCPPPPPVLDGEDVLPDLDLLPPPPPPPPVLLPSEEEPPTPMGASLIADLEQLHLSP
          ATVPAAP.QLSNGGC.PPPPVLDGED.LPDLDL.PPPP.PPPVLL.SEEE.P.P.GASLIADLEQLHL..
Retrocopy ATVPAAPLQLSNGGCSPPPPVLDGEDALPDLDLIPPPPLPPPVLLSSEEEAPAPVGASLIADLEQLHLPS

Parental  PPPPPQAPAEGPSVQPG--PLRPVEEELPPPPAEPVEKGASTDICAFCHKTVSPRELAVEAMKRQYHAQC
          PP..PQA..EGPSVQPG..PLRP.EEELPP.PAEPVE...STDICAFCHKTVSP.ELAVEA.KRQYHAQC
Retrocopy PPTRPQALVEGPSVQPGPSPLRPGEEELPPSPAEPVERESSTDICAFCHKTVSPQELAVEAIKRQYHAQC

Parental  FTCRTCRRQLAGQSFYQKDGRPLCEPCYQDTLERCGKCGEVVRDHIIRALGQAFHPSCFTCVTCARCIGD
          FT..TC.RQLA.QSFYQ.DGRPLCEPCYQDTLE.CGKCG.VVR.HIIRALGQAFHPSCF.CVT.ARCI.D
Retrocopy FTWHTCHRQLAAQSFYQ-DGRPLCEPCYQDTLEKCGKCGQVVREHIIRALGQAFHPSCFMCVTYARCIQD

Parental  ESFALGSQNEVYCLDDFYRYEKGLCT
          ESFALGSQNE.YCLD.FY......C.
Retrocopy ESFALGSQNEMYCLDEFYKKFAPVCS

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_3058 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_3058 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4898
Pan troglodytes	retro_ptro_3266
Pongo abelii	retro_pabe_3809
Macaca mulatta	retro_mmul_2635

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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,