RetrogeneDB ID: retro_ggor_936

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 13:32131398..32133497(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSG00000150526
• Ensembl ID: ENSGGOG00000011990
• Aliases: None
• Description: None

Sequence

>retro_ggor_936
TATGAAAGCTATGAAGTAGAGTCATCTTTAGACGATTCCAGCTTTGAGAAGGAGGCAACAGAAGCACAGAGTTTGGAGGC
AACGTGTGAAAAGCTGAGCAGGTTCAATTCTGAACTGGAGCATGAAATACCCTGTCCAGAAAAGGAGTTAAAAGAAGAGA
AATCTAAACATTCTGAACAAGATGAGGTGATGGCGGATATTTCCAAAAGGATACAGTCTCTAGAAGATGAGTCAAAATCC
CTCAAATCCCATGTAGCTGAAGCCAAAATGACCTTCAAGAGATTTCAAACGAGTGAAGAAAGAATGAAGATAGGAATACA
ATATGCTTTAAATGAAAATTCTCAACTTCAGGAAAGCCAGAAACAGCTTTTGCAAGACGCTGAAGTATGGAAAGAACAAG
TGAGTGAACTTAATAAACAGAAAATAACATTTGAAGACCCAAAGTACACGCAGAACAAGTTCTAAATGATAAAGAAAATC
ACATCAAGACTCTGACTGAACACTTGCTAAAGATCAAAGATGAGGCTGCTATGCTGGAAGAAGACATAACGGATGATGGT
AACTTGGAATTAGAAATGAACAGTGAATCAGAAGATGGTGCTTACTTAGATAATCCTCCAAAAGGAGCTTTGAAGAAACT
GCTTCATGCTGCTAAGCTAAATGCTTCTTTAACAACCTTAGAAGGAGAAAGAAACCAAATTTATATACAGTTATCTGAAG
TTGATAAAACCAAGGAAGAGCTTAGAGGGCATATTAAAAATCTTCAGACGGAACAAGTATCTTTGCAGTTGGAAAACACA
CATTTTGAAAGTGAGAATCAGAAGCTTCAACAGAAACTTAAGGTAATGACAGAATTATATCAAGAAAATGAAATGAAACT
CTACAGGAAATTAATAGTAGAGGAAAATAACCGGCTAGAGAAAGAGAAACTTTCTAAAGTAGATGAAATGATCAGCCATG
CCGCTGAAGAGCTGGAGACCTGCAGAAAGCAAGCAAAAGATCTTGAAGAAGAATTTCAGAGAACTATTCATGTTTATCAA
GGGAAGATTATATACCATTAGAAAAAAGCACACAATAATTGTTTGGCAGCATGGACTGCTGAAAGAAACCTCGACGATTT
AAGGAAAGAAAATGCTCACAACAGACAAAAATTAGCTGAAACAGAGTTTACAATTAAACTTTTAGAAAAAGATCCTTATG
CACTTGATGTTCCAAATACAGCATTTGGCAGAGAGCATTCCTCATATGGTCCCTCACCATTGGATCGGCCTTCATCTGAA
ATGAGAACTTTTCTCTATCTTCCGACTTTGTGGGAGGGTCCACTGAGACTCTCATCTTTGCTTCCAGCAGGAGGAGGAGA
GGCCCAAGAGGCCCAGGGAATCCTCTGGACCACCAGATTACCAAGGAAAGAGGAGAATCAAGCTGTGATAGGTTTACCGA
TCCTCACAGGGCTCCTTCTGACACTGGGTTCCTGTCACCTCCGTGGGAACAGGACCGTAGGATGATGTCTCCTCCACCAG
GACAATCATATCCTGATTCAGCTCTTCCTCCACAAAGGCAAGACAGATTTTATTCTAATTATGCTAGACGCTCTGGACCA
GCAGAACTCAGAAGTTTTAATAAGCCTCCTTTGGATAAAATGGATGGGTCAATGCCTTCAGAAATGGAATCCAGTAGAAA
TGATACCAAAGATAATCTTGGTAATTTAAATGTGCCTGATTCATCTCTCCCCGCTGGAAATGAAGTGACTGGCCCTGGCT
TTGTTCCTCCACCTCTTGCTCCAATCAGAGGTCCATTGTTTCCAGTGGATATGAGGGGCCCGTTCATGAGAAGAGGACCT
CCTTTCCCTCCACCTCCTCCAGGAACCATGTTGGAGCTTCTCCAGATTATTTTCCACCAAGGGATGTCCCAGGTCCACCA
CGTGCTCCATTTGCAATGAGAAATGTCTATCCACCGAGGGGTTTTCCTCCTTACCTTCCCCCAAGACCTGGATTTCCCCG
CCTACCCGCACATTCTGAAGGTAGATTGAGCTCCCTTCAGGGTTGAGTCTGCCTTCAAATGAGCCTGCTGCTGAAGATCC
AGAACCACGGCAAGAAACT

Alignment

ORF - retro_ggor_936 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.65 %
• Parental protein coverage: 52.53 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  YEGYEVESSLKDASFEKEATEAQSLEATCEKLNRSNSELEDEILCLEKELKEEKSKHSEQDELMADISKR
          YE.YEVESSL.D.SFEKEATEAQSLEATCEKL.R.NSELE.EI.C.EKELKEEKSKHSEQDE.MADISKR
Retrocopy YESYEVESSLDDSSFEKEATEAQSLEATCEKLSRFNSELEHEIPCPEKELKEEKSKHSEQDEVMADISKR

Parental  IQSLEDESKSLKSQVAEAKMTFKIFQMNEERLKIAIKDALNENSQLQESQKQLLQEAEVWKEQVSELNKQ
          IQSLEDESKSLKS.VAEAKMTFK.FQ..EER.KI.I..ALNENSQLQESQKQLLQ.AEVWKEQVSELNKQ
Retrocopy IQSLEDESKSLKSHVAEAKMTFKRFQTSEERMKIGIQYALNENSQLQESQKQLLQDAEVWKEQVSELNKQ

Parental  KVTFEDSK-VHAEQVLNDKESHIKTLTERLLKMKDWAAMLGEDITDDDNLELEMNSESENGAYLDNPPKG
          K.TFED.K.VHAEQVLNDKE.HIKTLTE.LLK.KD.AAML.EDITDD.NLELEMNSESE.GAYLDNPPKG
Retrocopy KITFEDPK<VHAEQVLNDKENHIKTLTEHLLKIKDEAAMLEEDITDDGNLELEMNSESEDGAYLDNPPKG

Parental  ALKKLIHAAKLNASLKTLEGERNQIYIQLSEVDKTKEELTEHIKNLQTEQASLQSENTHFENENQKLQQK
          ALKKL.HAAKLNASL.TLEGERNQIYIQLSEVDKTKEEL..HIKNLQTEQ.SLQ.ENTHFE.ENQKLQQK
Retrocopy ALKKLLHAAKLNASLTTLEGERNQIYIQLSEVDKTKEELRGHIKNLQTEQVSLQLENTHFESENQKLQQK

Parental  LKVMTELYQENEMKLHRKLTVEENYRLEKEEKLSKVDEKISHATEELETYRKRAKDLEEELERTIHSYQG
          LKVMTELYQENEMKL.RKL.VEEN.RLEK.EKLSKVDE.ISHA.EELET.RK.AKDLEEE..RTIH.YQG
Retrocopy LKVMTELYQENEMKLYRKLIVEENNRLEK-EKLSKVDEMISHAAEELETCRKQAKDLEEEFQRTIHVYQG

Parental  QIISHEKKAHDNWLAARNAERNLNDLRKENAHNRQKLTETELKFELLEKDPYALDVPNTAFGREHSPYGP
          .II.H.KKAH.N.LAA..AERNL.DLRKENAHNRQKL.ETE....LLEKDPYALDVPNTAFGREHS.YGP
Retrocopy KIIYH*KKAHNNCLAAWTAERNLDDLRKENAHNRQKLAETEFTIKLLEKDPYALDVPNTAFGREHSSYGP

Parental  SPLGWPSSETRAFLSPPTLLEGPLRLSPLLPGGGG-RGSRGPGNPLDHQITNERGESSCDRLTDPHRAPS
          SPL..PSSE.R.FL..PTL.EGPLRLS.LLP.GGG.RG.RGPGNPLDHQIT.ERGESSCDR.TDPHRAPS
Retrocopy SPLDRPSSEMRTFLYLPTLWEGPLRLSSLLPAGGG<RGPRGPGNPLDHQITKERGESSCDRFTDPHRAPS

Parental  DTGSLSPPWDQDRRMMFPPPGQSYPDSALPPQRQDRFCSNSGRLSGPAELRSFNMPSLDKMGKKLYTDMA
          DTG.LSPPW.QDRRMM.PPPGQSYPDSALPPQRQDRF.SN..R.SGPAELRSFN.P.LDKM.......M.
Retrocopy DTGFLSPPWEQDRRMMSPPPGQSYPDSALPPQRQDRFYSNYARRSGPAELRSFNKPPLDKMDGSMPSEME

Parental  SKYMLENDCKFTVLNLNVPDSSLPAENEATGPGFVPPPLAPIRGPLFPVDTRGPFLRRGPPFPPPPPGAM
          S.....ND.K....NLNVPDSSLPA.NE.TGPGFVPPPLAPIRGPLFPVD.RGPF.RRGPPFPPPPPG.M
Retrocopy SS---RNDTKDNLGNLNVPDSSLPAGNEVTGPGFVPPPLAPIRGPLFPVDMRGPFMRRGPPFPPPPPGTM

Parental  F-GASRDYFPPRDFPGPPHAQFAMRNVYPPRGFPPYLPPRPGFFPPPPHSEGR-SEFPSGLIPPSNEPAT
          ..GAS.DYFPPRD.PGPP.A.FAMRNVYPPRGFPPYLPPRPGF...P.HSEGR..E.PSGL..PSNEPA.
Retrocopy L<GASPDYFPPRDVPGPPRAPFAMRNVYPPRGFPPYLPPRPGFPRLPAHSEGR<IELPSGLSLPSNEPAA

Parental  EHPEPQQET
          E.PEP.QET
Retrocopy EDPEPRQET

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	9.11 RPM
SRP007412_cerebellum	0.00 RPM	5.95 RPM
SRP007412_heart	0.00 RPM	3.19 RPM
SRP007412_kidney	0.04 RPM	123.28 RPM
SRP007412_liver	0.08 RPM	102.69 RPM
SRP007412_testis	2.90 RPM	28.28 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_936 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_936 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 41 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000016105	4 retrocopies	retro_cjac_1747, retro_cjac_2711, retro_cjac_3217, retro_cjac_921,
Cavia porcellus	ENSCPOG00000026514	2 retrocopies	retro_cpor_189, retro_cpor_727,
Homo sapiens	ENSG00000150527	3 retrocopies	retro_hsap_1201, retro_hsap_3691, retro_hsap_640,
Homo sapiens	ENSG00000258941	1 retrocopy	retro_hsap_78,
Gorilla gorilla	ENSGGOG00000011990	1 retrocopy	retro_ggor_936 ,
Nomascus leucogenys	ENSNLEG00000004121	10 retrocopies	retro_nleu_1218, retro_nleu_1690, retro_nleu_2087, retro_nleu_2103, retro_nleu_2148, retro_nleu_2600, retro_nleu_2951, retro_nleu_3017, retro_nleu_3077, retro_nleu_688,
Pongo abelii	ENSPPYG00000005768	9 retrocopies	retro_pabe_1001, retro_pabe_1002, retro_pabe_1007, retro_pabe_1055, retro_pabe_1060, retro_pabe_1588, retro_pabe_2119, retro_pabe_29, retro_pabe_3024,
Pan troglodytes	ENSPTRG00000006297	10 retrocopies	retro_ptro_1286, retro_ptro_1712, retro_ptro_2503, retro_ptro_2580, retro_ptro_2880, retro_ptro_466, retro_ptro_821, retro_ptro_826, retro_ptro_868, retro_ptro_876,
Ictidomys tridecemlineatus	ENSSTOG00000015890	1 retrocopy	retro_itri_95,