RetrogeneDB ID: retro_ggor_1841

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 3:35822138..35823120(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FECH
• Ensembl ID: ENSGGOG00000005554
• Aliases: None
• Description: None

Sequence

>retro_ggor_1841
TCAGTTGTCACAGAAACAGCCCAGCGTGGCCAGGGTGCAAAACCTCAAGTTCAAGTGGAGAAGAGGAAGCTGAAAACTGG
AATATTAATGCTAAACATGGGAGGACCTGAAACCCTCTGACAGGTTCATGACTTCCTTCTGAGGCTCTTTTTGGACCAAG
ACCTCATGATACTTACTGTTCAAAATAAGTTTACACCATTCTTTGCCAAATGCAGAACCTCCAAGATTCAAGGGCAGTAC
CACAGAACTGGAGGTGGGTCCTCCATCAAGACGTGGATTTCCAAGCAGGGAGAAGGCATGGTGAAGCTGCTGGATGACTT
GTCCCCCTACACAGCCCCTCACAAATACTTCATTGGATTTTGGCATGTCCATTCTTTATCAAAAGAAGCAAATGAAGAGA
TGGAGAGAGATGGCCTGGAAAGGGCTATTGCTTTCATGCAGCATCCACAGTACGCTTGCTGTACCACAGGCGGCGGCTTA
AATGCCATTTAAAGATCCTATAATAGAGTGGGACAGAAGTTTACAATGAAGTGCAGCACGATCAGTAGGTGGCCCACACA
TTGCCTCCTCACCCACTGCTTTGTTGACTACATTCTGAAAGAGCTGGACCATTTTCCACTGGAGAAGAGAAGCGAGTTGG
CCATTCTCTTTTCTGCTCACTCACTGCCAATATCCGTGATCAACAGAGGAGACCCCTATTCTCAGGAGTTAAGTGCCACT
ATCCAAAGAATCATAGAAAGGCTGGGTTACTGCAACCCTTACCAGCTGGTGTGAGGATCCAAGGTTGGTTCAGTGCCCTG
GATGGGTCTTCAAACAGATGAAATCTATCAGAGGGCTTTCTGAGAGGGGGAAGAAGAATATCCTCTCACTTTTGATAGCA
TTTACCAATGATAACACCGAAATGCTGTAGAAACTGGATATCGAGTACGCTCAAGTTTTAGACAATGAGTGTGGAGTTGA
AGACATCAGAAGAGCAGCCTCT

Alignment

ORF - retro_ggor_1841 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.87 %
• Parental protein coverage: 77.3 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AATTETAQHAQGAKPQVQPQKR-YESNISERNYKGNHTLFDVFSSRVRLFHVRGLSPLSLMNSKLAPFIA
          ...TETAQ..QGAKPQVQ..KR.....I...N..G..TL..V.....RLF....L..L...N.K..PF.A
Retrocopy SVVTETAQRGQGAKPQVQVEKRKLKTGILMLNMGGPETL*QVHDFLLRLFLDQDLMILTVQN-KFTPFFA

Parental  KRRTPKIQEQYRRIGGGSPIKIWTSKQGEGMVKLLDELSPNTAPHKYYIGFRYVHPLTEEAIEEMERDGL
          K.RT.KIQ.QY.R.GGGS.IK.W.SKQGEGMVKLLD.LSP.TAPHKY.IGF..VH.L..EA.EEMERDGL
Retrocopy KCRTSKIQGQYHRTGGGSSIKTWISKQGEGMVKLLDDLSPYTAPHKYFIGFWHVHSLSKEANEEMERDGL

Parental  ERAIAFTQYPQYSCSTTGSSLNAIYRYYNQVGRKPTMKWSTIDRWPTHRLLIQCFADHILKELDHFPLEK
          ERAIAF.Q.PQY.C.TTG..LNAI.R.YN.VG.K.TMK.STI.RWPTH.LL..CF.D.ILKELDHFPLEK
Retrocopy ERAIAFMQHPQYACCTTGGGLNAI*RSYNRVGQKFTMKCSTISRWPTHCLLTHCFVDYILKELDHFPLEK

Parental  RSEVVILFSAHSLPMSVVNRGDPYPQEVSATVQKVMERLGYCNPYRLVWQSKVGPMPWLGPQTDE-SIKG
          RSE..ILFSAHSLP.SV.NRGDPY.QE.SAT.Q...ERLGYCNPY.LV..SKVG..PW.G.QTDE.SI.G
Retrocopy RSELAILFSAHSLPISVINRGDPYSQELSATIQRIIERLGYCNPYQLV*GSKVGSVPWMGLQTDE>SIRG

Parental  LCERGRKNILLVPIAFTSDHIETLYELDIEYSQVLAKECGVENIRRAES
          L.ERG.KNIL...IAFT.D..E.L..LDIEY.QVL..ECGVE.IRRA.S
Retrocopy LSERGKKNILSLLIAFTNDNTEML*KLDIEYAQVLDNECGVEDIRRAAS

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	8.68 RPM
SRP007412_cerebellum	0.00 RPM	5.48 RPM
SRP007412_heart	0.00 RPM	4.32 RPM
SRP007412_kidney	0.04 RPM	11.98 RPM
SRP007412_liver	0.00 RPM	7.86 RPM
SRP007412_testis	0.00 RPM	6.63 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_1841 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1841 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2631
Pan troglodytes	retro_ptro_1776
Pongo abelii	retro_pabe_2332
Macaca mulatta	retro_mmul_1485

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000003873	1 retrocopy	retro_cjac_4008,
Homo sapiens	ENSG00000066926	1 retrocopy	retro_hsap_2631,
Gorilla gorilla	ENSGGOG00000005554	1 retrocopy	retro_ggor_1841 ,
Macaca mulatta	ENSMMUG00000022568	1 retrocopy	retro_mmul_1485,
Nomascus leucogenys	ENSNLEG00000008062	1 retrocopy	retro_nleu_643,
Oryctolagus cuniculus	ENSOCUG00000003020	1 retrocopy	retro_ocun_497,
Pongo abelii	ENSPPYG00000009182	1 retrocopy	retro_pabe_2332,
Pan troglodytes	ENSPTRG00000010045	1 retrocopy	retro_ptro_1776,