RetrogeneDB ID: retro_ggor_621

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 10:139581780..139582678(-)
• Located in intron of: ENSGGOG00000007492

Retrocopy information

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

Parental gene information

• Parental gene symbol: ALDOA
• Ensembl ID: ENSGGOG00000013979
• Aliases: None
• Description: Fructose-bisphosphate aldolase [Source:UniProtKB/TrEMBL;Acc:G3RDM7]

Sequence

>retro_ggor_621
GAACTTGCCACCACCAGCACCATGCCCTACCAATATCCAGCATTGACCCTGGAGCAGAAGAAGGAGCTGTCTGACATCGC
TCACCGCATCGTGGCACTGGGCAAGGGCATCCTGGCTGCAGATGAGTCCACTGGGAGCATTGCCAAGCGGCTGCAGTCCC
TTGGCGCCGAGAACACCGAAGAGAACCGGCGCTTCTACCGTCAGCTGCTGCTGACAGCTGATGACTGCGTGAACCCCTGC
ATCGGGGACGTCATCCTCTTCCACCAGACACTCTACCAGAAGAAGGATGATGGGCGTCCTTTCCCCCAAGTTGTCATATC
CAAGGGTGGTGTTGGGGGCAGCAAGGTAGACAAGGGCGTGGTCCCCCTTGCAGGGACAAATGGCGAGACCACCACCCAAG
GGTTGTATGGGCTGTCTGAGTGCTGTGCCCAGTACAAGAAGGATGGAGCTGACTTCACCAAGTGGCATTGTGTTCTGAAG
ACTGGGGAACACACCCCCTCCGCCCTTGCCATCATGGAAAATACCAACGTCCTGGCCTGTTATGCCAGCATCTGCTAGCA
GAGTGGCATTGTGCCCATTGTGGAGCCTGAGATCCTCCCTAATGGGGACCATGACTTGAAGCACTGCCAGTGTGTGACCA
AGAAGGTGCTGACTGCTGTCTACAAGGCTCTGAGTGATCAACACATCTATCTTGGAAGGCATCTTGCTGAACCCCAGCAT
GGTCACCCCAGGCCATCCCTGCATCCAGAAGTTTTCTCACGAGGAGATTGCCATGGTGACTGTCACAACGCTGCACCGCA
CAGTGCCCCCCACTGTCCCTGGGATCACATTCCTGTCTGGAGGCCAGAATGAGGAGGAGGCATCCATCAACCTCAACGCC
ATTAACAAGTGCTCCCTG

Alignment

ORF - retro_ggor_621 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.67 %
• Parental protein coverage: 71.53 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ELATTSTMPYQYPALTPEQKKELSDIAHRIVAPGKGILAADESTGSIAKRLQSIGTENTEENRRFYRQLL
          ELATTSTMPYQYPALT.EQKKELSDIAHRIVA.GKGILAADESTGSIAKRLQS.G.ENTEENRRFYRQLL
Retrocopy ELATTSTMPYQYPALTLEQKKELSDIAHRIVALGKGILAADESTGSIAKRLQSLGAENTEENRRFYRQLL

Parental  LTADDRVNPCIGGVILFHETLYQKSDDGRPFPQVIKSKGGVVGIKVDKGVVPLAGTNGETTTQGLDGLSE
          LTADD.VNPCIG.VILFH.TLYQK.DDGRPFPQV..SKGGV.G.KVDKGVVPLAGTNGETTTQGL.GLSE
Retrocopy LTADDCVNPCIGDVILFHQTLYQKKDDGRPFPQVVISKGGVGGSKVDKGVVPLAGTNGETTTQGLYGLSE

Parental  RCAQYKKDGADFAKWRCVLKIGEHTPSALAIMENANVLARYASICQQNGIVPIVEPEILPDGDHDLKRCQ
          .CAQYKKDGADF.KW.CVLK.GEHTPSALAIMEN.NVLA.YASIC.Q.GIVPIVEPEILP.GDHDLK.CQ
Retrocopy CCAQYKKDGADFTKWHCVLKTGEHTPSALAIMENTNVLACYASIC*QSGIVPIVEPEILPNGDHDLKHCQ

Parental  YVTEKVLAAVYKALSDHHIY-LEGTLLKPNMVTPGHACTQKFSHEEIAMATVTALRRTVPPAVTGITFLS
          .VT.KVL.AVYKALSD.HIY.LEG.LL.P.MVTPGH.C.QKFSHEEIAM.TVT.L.RTVPP.V.GITFLS
Retrocopy CVTKKVLTAVYKALSDQHIY>LEGILLNPSMVTPGHPCIQKFSHEEIAMVTVTTLHRTVPPTVPGITFLS

Parental  GGQSEEEASINLNAINKCPL
          GGQ.EEEASINLNAINKC.L
Retrocopy GGQNEEEASINLNAINKCSL

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	0.10 RPM	1075.66 RPM
SRP007412_cerebellum	0.00 RPM	509.46 RPM
SRP007412_heart	0.03 RPM	1092.79 RPM
SRP007412_kidney	0.00 RPM	365.38 RPM
SRP007412_liver	0.00 RPM	103.27 RPM
SRP007412_testis	0.00 RPM	226.37 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_621 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_621 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_740
Pan troglodytes	retro_ptro_526
Pongo abelii	retro_pabe_636

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Parental genes homology:

Parental genes homology involve 16 parental genes, and 30 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000008221	2 retrocopies	retro_cfam_190, retro_cfam_631,
Callithrix jacchus	ENSCJAG00000006874	1 retrocopy	retro_cjac_1803,
Cavia porcellus	ENSCPOG00000007434	1 retrocopy	retro_cpor_951,
Echinops telfairi	ENSETEG00000019230	1 retrocopy	retro_etel_20,
Homo sapiens	ENSG00000149925	1 retrocopy	retro_hsap_740,
Gorilla gorilla	ENSGGOG00000013979	1 retrocopy	retro_ggor_621 ,
Myotis lucifugus	ENSMLUG00000011210	3 retrocopies	retro_mluc_1172, retro_mluc_2634, retro_mluc_808,
Macaca mulatta	ENSMMUG00000000983	1 retrocopy	retro_mmul_2596,
Monodelphis domestica	ENSMODG00000015696	4 retrocopies	retro_mdom_1236, retro_mdom_1356, retro_mdom_528, retro_mdom_96,
Mus musculus	ENSMUSG00000030695	3 retrocopies	retro_mmus_2160, retro_mmus_42, retro_mmus_90,
Nomascus leucogenys	ENSNLEG00000002152	1 retrocopy	retro_nleu_133,
Oryctolagus cuniculus	ENSOCUG00000006329	1 retrocopy	retro_ocun_1550,
Ochotona princeps	ENSOPRG00000009760	1 retrocopy	retro_opri_914,
Pongo abelii	ENSPPYG00000007244	1 retrocopy	retro_pabe_636,
Pan troglodytes	ENSPTRG00000007983	1 retrocopy	retro_ptro_526,
Rattus norvegicus	ENSRNOG00000023647	7 retrocopies	retro_rnor_1343, retro_rnor_1541, retro_rnor_1796, retro_rnor_1807, retro_rnor_226, retro_rnor_2791, retro_rnor_536,