RetrogeneDB ID: retro_ggor_973

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 13:5917793..5919265(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: IPO7
• Ensembl ID: ENSGGOG00000002260
• Aliases: None
• Description: None

Sequence

>retro_ggor_973
TTTATTAATCAAGGAGTTTCTCATGCTCTCACCTGGAAGAATCCAAAGCCCCATATAGAAGGCATTATCCAAGATGTTAT
TTTTCCATTGATGTGCTATACAGATGCTGATGAGTAACTTTGGCAAGAAGACCCTTACGAATATATATGCATGAAGTTTA
ATGTGTTTGAAGATTTCATTTCTCCTACCACTGCTGCCCAGACACTTTTGTTTACAGCCTGTAGTAAGAGGAAAGAGGTA
CTGCAAAAGACCATGGAATTTTGTTACCAGATTCTTACAGAACCAAATGCTGACCCTCAAAAAAAAGATGGAGCCCTGCA
TATGATTGGCTCTTTAGCTGAAATACTTCTGAAGAAAAAGATCTATAACGATCAGATGGAATGCATGTTGCAGAATCATG
TACTCCCCCTCTTCAGCAGTGAACTAGGCTACATGAGAGCAAGGGCTTGCTGGGTAATTCACTATTTCTGTGAAGTGAAG
TTCGAAAGTGATCAGAACCTTCAAACAGCCTTAGAGCTGACAAGAAGATGTCTGATTGATGATAGAGAAATGCCTGTGAA
AGTGGAAGCTGCCATTGCCCTTCAAGTATTGATCAGCAATCAAGAAAAAGCTAAAGAATATATCACACCATTCATCAGAC
CTGTAATGCAGGCTCTTCTTCATATTATCAGAGAAACAGAAAATGATGACCTTACCCATGTAATTCAGAAAATGATCTGT
GAATATAGTGAAGAATTTACTCCTATTGCAGTAGAAATGACACAACATTTGGCAGTGACATTTAACCAAGTAATCCAGAT
GGGGCCAGATGAAGAAGGTAGTGATGAAAAAGCAGTTACTGCTATGGGAATTCTGAATACACCTGACACACTTCTTAGTG
TAGCTGAAGATCATTAAGAGATAACCCAACAGCTCGAGGGAATCTGCTTACAGGTCGTTCCTACTGTTTTACAACAGCAT
GTCTTAGAATTCTATGAGGAGATCTTCTCTTTAGTGCACAGTTTGACATGACAACGAGAGTCTCCACAGATGTGGCAGCT
ACTTCCCCTTGTATTTGAAGTCTTCCAGCAAGATGGCTTTGATTACTTTACAGATATGATGCCCCTCCTTTGTAATTATG
TAACAGTTGATACAGACACACTTCTGTCTGAAACCAAGTATCTTGAAGTGATACACAGTATGTGCAAAAAGCTTCTTACA
GGAGTTGCAGGAGAAGATGCAGAGTGTCATGCAACAAAACTGTTAGAGGTCATCGCTCTGCAGTGCAAAGGGCGTGGCAC
TGACCAGAGGAACCGGAGAGTGATGAAGATGATGTTGATGAAGATGGGCAAGAATATTTGGAGATTCTGGCTAAGCAGGC
TGGTGAAGATGGAGATGATGAAGATTGGTAAGAAGATGATGCGGAAGAGACTGCTCTGGAAGGCTATTCCACAATCATTG
ATGATGAAGATAACCCTGTTGATGCGTATCAG

Alignment

ORF - retro_ggor_973 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.24 %
• Parental protein coverage: 58.4 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  YINQGVSHALTWKNLKPHIQGIIQDVIFPLMCYTDADEELWQEDPYEYIRMKFDVFEDFISPTTAAQTLL
          .INQGVSHALTWKN.KPHI.GIIQDVIFPLMCYTDADE.LWQEDPYEYI.MKF.VFEDFISPTTAAQTLL
Retrocopy FINQGVSHALTWKNPKPHIEGIIQDVIFPLMCYTDADE*LWQEDPYEYICMKFNVFEDFISPTTAAQTLL

Parental  FTACSKRKEVLQKTMGFCYQILTEPNADPRKKDGALHMIGSLAEILLKKKIYKDQMEYMLQNHVFPLFSS
          FTACSKRKEVLQKTM.FCYQILTEPNADP...DGALHMIGSLAEILLKKKIY.DQME.MLQNHV.PLFSS
Retrocopy FTACSKRKEVLQKTMEFCYQILTEPNADPXXXDGALHMIGSLAEILLKKKIYNDQMECMLQNHVLPLFSS

Parental  ELGYMRARACWVLHYFCEVKFKSDQNLQTALELTRRCLIDDREMPVKVEAAIALQVLISNQEKAKEYITP
          ELGYMRARACWV.HYFCEVKF.SDQNLQTALELTRRCLIDDREMPVKVEAAIALQVLISNQEKAKEYITP
Retrocopy ELGYMRARACWVIHYFCEVKFESDQNLQTALELTRRCLIDDREMPVKVEAAIALQVLISNQEKAKEYITP

Parental  FIRPVMQALLHIIRETENDDLTNVIQKMICEYSEEVTPIAVEMTQHLAMTFNQVIQTGPDEEGSDDKAVT
          FIRPVMQALLHIIRETENDDLT.VIQKMICEYSEE.TPIAVEMTQHLA.TFNQVIQ.GPDEEGSD.KAVT
Retrocopy FIRPVMQALLHIIRETENDDLTHVIQKMICEYSEEFTPIAVEMTQHLAVTFNQVIQMGPDEEGSDEKAVT

Parental  AMGILNTIDTLLSVVEDHKEITQQLEGICLQVIGTVLQQHVLEFYEEIFSLAHSLTCQQVSPQMWQLLPL
          AMGILNT.DTLLSV.EDH.EITQQLEGICLQV..TVLQQHVLEFYEEIFSL.HSLT.Q..SPQMWQLLPL
Retrocopy AMGILNTPDTLLSVAEDH*EITQQLEGICLQVVPTVLQQHVLEFYEEIFSLVHSLT*QRESPQMWQLLPL

Parental  VFEVFQQDGFDYFTDMMPLLHNYVTVDTDTLLSDTKYLEMIYSMCKKVLTGVAGEDAECHAAKLLEVIIL
          VFEVFQQDGFDYFTDMMPLL.NYVTVDTDTLLS.TKYLE.I.SMCKK.LTGVAGEDAECHA.KLLEVI.L
Retrocopy VFEVFQQDGFDYFTDMMPLLCNYVTVDTDTLLSETKYLEVIHSMCKKLLTGVAGEDAECHATKLLEVIAL

Parental  QCKGRGIDQ-ELGSDEDD-IDEDGQEYLEILAKQAGEDGDDEDWEEDDAEETALEGYSTIIDDEDNPVDE
          QCKGRG.DQ.E......D..DEDGQEYLEILAKQAGEDGDDEDW.EDDAEETALEGYSTIIDDEDNPVD.
Retrocopy QCKGRGTDQ<EEPESDEDDVDEDGQEYLEILAKQAGEDGDDEDW*EDDAEETALEGYSTIIDDEDNPVDA

Parental  YQ
          YQ
Retrocopy YQ

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	40.81 RPM
SRP007412_cerebellum	0.00 RPM	30.97 RPM
SRP007412_heart	0.03 RPM	9.04 RPM
SRP007412_kidney	0.04 RPM	44.53 RPM
SRP007412_liver	0.08 RPM	17.20 RPM
SRP007412_testis	0.21 RPM	36.36 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_973 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_973 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Pongo abelii	retro_pabe_1036

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000015965	1 retrocopy	retro_ecab_345,
Homo sapiens	ENSG00000205339	1 retrocopy	retro_hsap_501,
Gorilla gorilla	ENSGGOG00000002260	1 retrocopy	retro_ggor_973 ,
Macaca mulatta	ENSMMUG00000023636	1 retrocopy	retro_mmul_437,
Pongo abelii	ENSPPYG00000029652	1 retrocopy	retro_pabe_1036,