RetrogeneDB ID: retro_ggor_2791

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 9:38264539..38265705(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSGGOG00000004480
• Aliases: None
• Description: None

Sequence

>retro_ggor_2791
GTGAGGTGGGTGACCCTGTTCCTGAATGGCAGCCCCAAGAACGGAAAGGTGGTTGCTGCATATGGAACTTTATCTGATTT
GCTGTCTGTGGCCAGCAGTAAATTCGGCATAAAAGCCACCAGTGTGTATAATGGGAAAGGTGGACTGAATGATGATACTG
TTTTGATCAGGGATGATGATGTTTTATTTGTGTGTGAGGGAGAGCCATTTATTGATCCTCAGACAGATTCTAAGCCTCCT
GAAGGATTGCTAGGATTCCACACAGACTGGCTAACATTAAATGTTGGAGGGCAGTACTTTACAACTACCTGGAGCACTTT
AGTGAATAAAGAACCTGACATTATGCTGGCCCACATGTCTAAGGACAAAGGTGTCTGGGGAAATAAGCAAGATCATAGAG
GAGCTTTCTTAATTGACCAAAGTCCTGAGTACTTTGAACCCATTTTGAACTACTTGTGTCATGGACAGCTCATTGTAAAT
GATGGCATTGATTTATTGGGTGTGTTAGAAGAAGCAAGATTTTTTGGTACTGACTCATTGATTGAACACCTAAAAGTGGC
AATAAAGAATTCTCAACTACCAGAGGATCATTTACCAATATCCCGAAAGGAATTTGTCTGATGTTTGCTAGCAACTCCAA
CCAAGTCAGAAATGTGATGCCAGGGTTTGAACTTCAGTGGTGCTGATCTTTCTCATTTGGATCTTCGATACATTAACTTC
AAAATCACCAATTTAAACTGCTGCAATCTTGCACATGCAAATCTTTGCTGTGCAAATCTTGAATGAGCTGATCTCTCTGG
ATCAGTGCTTGACTGTGCAAATCTCCAGGGAGTCAAATGCTCTGTTCTAATGCAGAAGGAGCATCTCTGAAACTGTGTAA
TTTTGAGGATCCTTCTGGTCTTAAAGCCAATTTAGAAGGTGCTAATCTGAAAGGTGTGGATATGGAAGGAAGTCAGATGA
CAGGAATTAACCTGAGAGTGGCTACCTTAGAGAATGCAAAGTTGAAGAACTGTAACCTCAGAGGAGCAACTCTGACAGGA
ACTGATTTAGAGAATTGTGATCTGTCTGGGTGTGATCTTCAAGAAGCCAACCTGAGAGGGTCCAACGTGAGGGGAGCTAT
ATTTGAAGAGATGCTGACACCACTACACATGACACAAAGTGTCAGA

Alignment

ORF - retro_ggor_2791 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.36 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MRRVTLFLNGSPKNGKVVVAVYGTLSDLLSVASSKLGIKATSVYNGKGGLIDDIALIRDDDVLFVCEGEP
          .R.VTLFLNGSPKNGKVV.A.YGTLSDLLSVASSK.GIKATSVYNGKGGL.DD..LIRDDDVLFVCEGEP
Retrocopy VRWVTLFLNGSPKNGKVVAA-YGTLSDLLSVASSKFGIKATSVYNGKGGLNDDTVLIRDDDVLFVCEGEP

Parental  FIDPQTDSKPPEGLLGFHTDWLTLNVGGRYFTTTRILRSTLVNKEPDSMLAHMFKDKGVWGNKQDHRGAF
          FIDPQTDSKPPEGLLGFHTDWLTLNVGG.YFTTT....STLVNKEPD.MLAHM.KDKGVWGNKQDHRGAF
Retrocopy FIDPQTDSKPPEGLLGFHTDWLTLNVGGQYFTTTW---STLVNKEPDIMLAHMSKDKGVWGNKQDHRGAF

Parental  LIDRSPEYFEPILNYLRHGQLIVNDGINLLGVLEEARFFGIDSLIEHLEVAIKNSQPPEDHSPISRKEFV
          LID.SPEYFEPILNYL.HGQLIVNDGI.LLGVLEEARFFG.DSLIEHL.VAIKNSQ.PEDH.PISRKEFV
Retrocopy LIDQSPEYFEPILNYLCHGQLIVNDGIDLLGVLEEARFFGTDSLIEHLKVAIKNSQLPEDHLPISRKEFV

Parental  RFLLATPTKSELRCQGLNFSGADLSRLDLRYINFKMANLSRCNLAHANLCCANLERADLSGSVLDCANLQ
          ..LLATPTKSE..CQGLNFSGADLS.LDLRYINFK..NL..CNLAHANLCCANLE.ADLSGSVLDCANLQ
Retrocopy *CLLATPTKSEM*CQGLNFSGADLSHLDLRYINFKITNLNCCNLAHANLCCANLE*ADLSGSVLDCANLQ

Parental  GVK-MLCSNAEGASLKLCNFEDPSGLKANLEGANLKGVDMEGSQMTGINLRVATLKN-KLKNCNLRGATL
          GVK.MLCSNAEGASLKLCNFEDPSGLKANLEGANLKGVDMEGSQMTGINLRVATL.N.KLKNCNLRGATL
Retrocopy GVK<MLCSNAEGASLKLCNFEDPSGLKANLEGANLKGVDMEGSQMTGINLRVATLENAKLKNCNLRGATL

Parental  AGTDLENCDLSGCDLQEANLRGSNVKGAIFEEMLTPLHMSQSVR
          .GTDLENCDLSGCDLQEANLRGSNV.GAIFEEMLTPLHM.QSVR
Retrocopy TGTDLENCDLSGCDLQEANLRGSNVRGAIFEEMLTPLHMTQSVR

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	7.86 RPM
SRP007412_cerebellum	0.00 RPM	7.60 RPM
SRP007412_heart	0.00 RPM	11.32 RPM
SRP007412_kidney	0.00 RPM	9.32 RPM
SRP007412_liver	0.00 RPM	5.51 RPM
SRP007412_testis	0.00 RPM	18.13 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_2791 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2791 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4156
Pan troglodytes	retro_ptro_2825

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012157	1 retrocopy	retro_chof_323,
Gorilla gorilla	ENSGGOG00000004480	3 retrocopies	retro_ggor_1309, retro_ggor_2264, retro_ggor_2791 ,
Gorilla gorilla	ENSGGOG00000010496	1 retrocopy	retro_ggor_1752,
Macaca mulatta	ENSMMUG00000010151	3 retrocopies	retro_mmul_1083, retro_mmul_1218, retro_mmul_2072,
Nomascus leucogenys	ENSNLEG00000016156	3 retrocopies	retro_nleu_1386, retro_nleu_2499, retro_nleu_2990,
Pongo abelii	ENSPPYG00000018452	3 retrocopies	retro_pabe_1527, retro_pabe_2725, retro_pabe_3457,