RetrogeneDB ID: retro_ggor_1189

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 15:23726520..23727364(-)
• Located in intron of: ENSGGOG00000024649

Retrocopy information

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

Parental gene information

• Parental gene symbol: AZI2
• Ensembl ID: ENSGGOG00000022881
• Aliases: None
• Description: None

Sequence

>retro_ggor_1189
AGAGATGATTTAAAGAGCAAATTGGATAAAATGAGTAAACACAACTCTGAATCTTTAAAAGTATTGAATAAACAGATGCA
ATCTAAAGAAGTAGAACTCTAGCTAAGGACAGAGGTGGAAACTCAGCTTGTGATGAGGAATTTCAATCCACCTTCATCAA
ACTGGGAGGTGGAAAAGTTAAGCTGTGACCTGAAGATCCACAGTTTGAAACAAGAGTTGATGAGGAAAGAAGGTAATGAT
CTCAAAATAGAAATACTCAAAAACCAGAGAAACCTATCTGTATCAGGAAGACAATCTTGAAGAGCAGAGATCTCTGAAGA
GTAAGAACTTCAAGTGATAATACACAGAATGTATACTGACAATTGAAGAGATAAATGTCTAATTTATATCTGGTGACTCA
AGTGCTAGCTGAACTATTAAGAAAACTGGAAACCCCAACTGCAATCAAGAAAGCCTGCACCTCAGTAGGATGCATTGAAG
ACCCTTGGAAAGACAGCACAAAACTGCACATGATGAATTTTACTGCAACATACACAAGACATCCCCTTCTCTCACCAAAT
GGCAAAGTTCTTTTTTATACTACATCTTCCCCTTTACCAGGAGATATAAAGTTTTTATCAGAGAAAGTAGTCCTCCAATC
ATGGAAAGATAATGAGAGAGCCATTCCTAATGAGGGCACACACTCTTATGGCAGAAATTCTCTGGAAGATCATTTTGAGT
ATTCCCAATCCCTCCTGACTCAAGTGAGACAGCATTTAGGGAAATTAAAGTAAAATTTTGCCTTCTAACCAATGTGCCAC
TACTGCATTACTTGGATCAACATAATAAAAATTTCCTTTATAAG

Alignment

ORF - retro_ggor_1189 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.95 %
• Parental protein coverage: 73.72 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  RDNLKSKLDKMNKDNSESLKVLNEQLQSKEVELLQLRTEVETQQVMRNLNPPSSNWEVEKLSCDLKIHGL
          RD.LKSKLDKM.K.NSESLKVLN.Q.QSKEVEL..LRTEVETQ.VMRN.NPPSSNWEVEKLSCDLKIH.L
Retrocopy RDDLKSKLDKMSKHNSESLKVLNKQMQSKEVEL*-LRTEVETQLVMRNFNPPSSNWEVEKLSCDLKIHSL

Parental  EQELELMRKECSDLKIEL-QKAKQTDPYQEDNL-KSRDLQRLSISSDNMQHAYWELKREMSNLHLVTQVQ
          .QEL..MRKE..DLKIE...K...T..YQEDNL.KSRDL.R...SSDN.Q..Y..LKR.MSNL.LVTQV.
Retrocopy KQEL--MRKEGNDLKIEI>SKTRETYLYQEDNL>KSRDL*RVRTSSDNTQNVY*QLKR*MSNLYLVTQVL

Parental  AELLRKLKTSTAIKKACAPVGCSEDLGRDSTKLHLMNFTATYTRHPPLSPNGKALCHTASSPLPGDVKVL
          AELLRKL.T.TAIKKAC..VGC.ED...DSTKLH.MNFTATYTRHP.LSPNGK.L..T.SSPLPGD.K.L
Retrocopy AELLRKLETPTAIKKACTSVGCIEDPWKDSTKLHMMNFTATYTRHPLLSPNGKVLFYTTSSPLPGDIKFL

Parental  SEKAILQSWTDNERSIPNDGTCFQEHSSYGRNSLEDNSW-VFPSPPKSSETAFGETKTKTLPLPNLPPLH
          SEK..LQSW.DNER.IPN.GT....HS.YGRNSLED....VFP.PP.SSETAF.E.K.K...L.N.P.LH
Retrocopy SEKVVLQSWKDNERAIPNEGT----HS-YGRNSLEDHFE<VFPIPPDSSETAFREIKVKFCLLTNVPLLH

Parental  YLDQHNQNCLYK
          YLDQHN.N.LYK
Retrocopy YLDQHNKNFLYK

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	17.93 RPM
SRP007412_cerebellum	0.00 RPM	17.93 RPM
SRP007412_heart	0.00 RPM	2.53 RPM
SRP007412_kidney	0.00 RPM	24.90 RPM
SRP007412_liver	0.00 RPM	19.07 RPM
SRP007412_testis	0.00 RPM	25.59 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_1189 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1189 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 14 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000010432	2 retrocopies	retro_chof_1794, retro_chof_234,
Dasypus novemcinctus	ENSDNOG00000011053	2 retrocopies	retro_dnov_1377, retro_dnov_542,
Homo sapiens	ENSG00000163512	2 retrocopies	retro_hsap_1491, retro_hsap_1564,
Gorilla gorilla	ENSGGOG00000022881	2 retrocopies	retro_ggor_1145, retro_ggor_1189 ,
Loxodonta africana	ENSLAFG00000008538	2 retrocopies	retro_lafr_529, retro_lafr_925,
Myotis lucifugus	ENSMLUG00000000043	3 retrocopies	retro_mluc_1707, retro_mluc_435, retro_mluc_611,
Macaca mulatta	ENSMMUG00000000056	1 retrocopy	retro_mmul_2135,
Monodelphis domestica	ENSMODG00000015075	1 retrocopy	retro_mdom_1786,
Nomascus leucogenys	ENSNLEG00000004069	1 retrocopy	retro_nleu_1714,
Oryctolagus cuniculus	ENSOCUG00000014956	1 retrocopy	retro_ocun_1778,
Otolemur garnettii	ENSOGAG00000005896	1 retrocopy	retro_ogar_3078,
Pongo abelii	ENSPPYG00000014053	2 retrocopies	retro_pabe_1241, retro_pabe_3784,
Pan troglodytes	ENSPTRG00000014707	1 retrocopy	retro_ptro_1052,
Tursiops truncatus	ENSTTRG00000016434	1 retrocopy	retro_ttru_1093,