RetrogeneDB ID: retro_ggor_98

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: X:120416207..120416996(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000024589
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: MRRF
• Ensembl ID: ENSGGOG00000023499
• Aliases: None
• Description: None

Sequence

>retro_ggor_98
ATGGCCTTGGGATTAAAGTGCTCCCGCATGGTCCACCCTGCCTTTTGCAATTATCTTGCAGCCTCTATCAGACCCGTTTC
AGAAGTTACACTGAAGACAGTGTATGAAAGACAACATGGCCATAGGCAATACGTGGCCTGTTCAGCCGTACCAGTCCACC
ATTTTGCTACCAAGAAAGCCAAAGCCAAAGGGAAAGGAAAGTCCCAAACCAGAGTGAATATTAGTGCTGCCTTTGTTGAG
GATATAATCAACTTGGAAGAGGTGAATGAAGAAATGAAGTCTGTGATAGAAGCACGCAAGGATAATTTCAATAAGACTCT
CAATATAAGGACCTCACCAGGATCCCTTGACAAGATTGCTGTGGTAACCGCTGATGGGAAACTTGCTTTAAACCAGATTA
GGCAGATCTCCGTGAAGTTGCCACAGCTGATTTTGGTGAATATGGCCAGCTTCCCAGAGTGTACAGTTGCAGCTATCAAG
GCTATAAGAGAAAGTAGAATGAATCTGAACCCAGAAGTGGAAGGGACACTAATTCGGGTACCCATTCCCCAAGTAATCAG
AGAGCACAGAGAAATGCTGGTGAAACTGGCCAAACAGAACACCAACAAGGCCAAATACTCTTTACAGAAGGTTTGTACCA
ACACAATGAACAAGCTGAAGAAATCCAAGGATACAGTCTCGGAGGACACCATTAGGCTAACAGAGAAACAGATCAGCCAA
ATGGCCGATGACACAGTGGCAGAACTGTACAGGCATCTGGCAGTGAAGACCAAAGAACTCCTTGGATGA

Alignment

ORF - retro_ggor_98 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.5 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MALGLKCFRMVHPTFCNYLAAFIRPVSEVTLKTVHERQHGHRRYMAYSAVPVRHFATKKAKAKGKGQSQT
          MALGLKC.RMVHP.FCNYLAA.IRPVSEVTLKTV.ERQHGHR.Y.A.SAVPV.HFATKKAKAKGKG.SQT
Retrocopy MALGLKCSRMVHPAFCNYLAASIRPVSEVTLKTVYERQHGHRQYVACSAVPVHHFATKKAKAKGKGKSQT

Parental  RVNINAALVEDIINLEEVNEEMKSVIEALKDNFNKTLNIRTSPGSLDKIAVVTADGKLALNQISQIAMKS
          RVNI.AA.VEDIINLEEVNEEMKSVIEA.KDNFNKTLNIRTSPGSLDKIAVVTADGKLALNQI.QI..K.
Retrocopy RVNISAAFVEDIINLEEVNEEMKSVIEARKDNFNKTLNIRTSPGSLDKIAVVTADGKLALNQIRQISVKL

Parental  PQLILVNMASFPECTAAAIKAIRESGMNLNPEVEGTLIRVPIPQVTREHREMLVKLAKQNTNKAKDSLRK
          PQLILVNMASFPECT.AAIKAIRES.MNLNPEVEGTLIRVPIPQV.REHREMLVKLAKQNTNKAK.SL.K
Retrocopy PQLILVNMASFPECTVAAIKAIRESRMNLNPEVEGTLIRVPIPQVIREHREMLVKLAKQNTNKAKYSLQK

Parental  VRTNSMNKLKKSKDTVSEDTIRLIEKQV
          V.TN.MNKLKKSKDTVSEDTIRL.EKQ.
Retrocopy VCTNTMNKLKKSKDTVSEDTIRLTEKQI

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	0.05 RPM	1.82 RPM
SRP007412_cerebellum	0.16 RPM	3.15 RPM
SRP007412_heart	0.19 RPM	1.13 RPM
SRP007412_kidney	0.53 RPM	5.64 RPM
SRP007412_liver	0.29 RPM	3.67 RPM
SRP007412_testis	1.14 RPM	13.88 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_98 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_98 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4897
Pan troglodytes	retro_ptro_3265
Pongo abelii	retro_pabe_80

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000007351	1 retrocopy	retro_cpor_877,
Homo sapiens	ENSG00000148187	1 retrocopy	retro_hsap_4897,
Gorilla gorilla	ENSGGOG00000023499	1 retrocopy	retro_ggor_98 ,
Mus musculus	ENSMUSG00000026887	1 retrocopy	retro_mmus_340,
Nomascus leucogenys	ENSNLEG00000017177	1 retrocopy	retro_nleu_1263,
Pongo abelii	ENSPPYG00000019570	1 retrocopy	retro_pabe_80,
Pan troglodytes	ENSPTRG00000021324	1 retrocopy	retro_ptro_3265,
Rattus norvegicus	ENSRNOG00000025997	2 retrocopies	retro_rnor_1477, retro_rnor_2654,
Sarcophilus harrisii	ENSSHAG00000012469	2 retrocopies	retro_shar_610, retro_shar_704,
Tupaia belangeri	ENSTBEG00000016569	1 retrocopy	retro_tbel_4411,