RetrogeneDB ID: retro_ggor_779

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 12:17642007..17642511(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TIMM17B
• Ensembl ID: ENSGGOG00000011427
• Aliases: None
• Description: None

Sequence

>retro_ggor_779
ATGGAGGAGTACGCTCGGGAGCCTTGCCCATGGCGAATTGTGGATGATTGTGGTGGAGCGTTCACTATGGGTGTCATTGG
TGGCGGAGTCTTCCAGGCCATCAAGAGTTTCCGCAATGACCCTGTCGGAATTCGGCACCAGTTGAGAGGTAGTGCCAACA
CTGCGAGGATCCGAGTTCCCCAGATTAGAGGTAGCTTCGCAGTGTTGGGGGGCCTGTTCTCCACCATCGACTGTGGCCTG
GTGCGGCTTTAGGGCAAGGAGGATCCCTGGAAATCTATTACCAGTGGAGCATCGACTGGGGCTGTGCTGGCTGCCTGCAG
TGGCCCACTGGCCATAGTGGGCTCAGCGATGATGGGGGGCATCCTGTTGGCCCTCACTGAGGGCGTTGGCATCCTCCTCA
CTCGCTACACGGCCCGGCAGTTCCAAAATGCGCCGTCGTTGCTGGAGGACCCCAGCCAGCTGCCTCCTAAGGATGGCACC
CCGGCCCCAGGCTATCCCAGCTAT

Alignment

ORF - retro_ggor_779 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.29 %
• Parental protein coverage: 97.67 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MEEYAREPCPWRIVDDCGGAFTMGVIGGGVFQAIKGFRNAPVGIRHRLRGSANAVRIRAPQIGGSFAVWG
          MEEYAREPCPWRIVDDCGGAFTMGVIGGGVFQAIK.FRN.PVGIRH.LRGSAN..RIR.PQI.GSFAV.G
Retrocopy MEEYAREPCPWRIVDDCGGAFTMGVIGGGVFQAIKSFRNDPVGIRHQLRGSANTARIRVPQIRGSFAVLG

Parental  GLFSTIDCGLVRLRGKEDPWNSITSGALTGAVLAARSGPLAMVGSAMMGGILLALIEGVGILLTRYTAQQ
          GLFSTIDCGLVRL.GKEDPW.SITSGA.TGAVLAA.SGPLA.VGSAMMGGILLAL.EGVGILLTRYTA.Q
Retrocopy GLFSTIDCGLVRL*GKEDPWKSITSGASTGAVLAACSGPLAIVGSAMMGGILLALTEGVGILLTRYTARQ

Parental  FRNAPPFLEDPSQLPPKDGTPAPGYPSY
          F.NAP..LEDPSQLPPKDGTPAPGYPSY
Retrocopy FQNAPSLLEDPSQLPPKDGTPAPGYPSY

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	11.41 RPM
SRP007412_cerebellum	0.00 RPM	10.52 RPM
SRP007412_heart	0.00 RPM	13.16 RPM
SRP007412_kidney	0.00 RPM	11.04 RPM
SRP007412_liver	0.00 RPM	9.15 RPM
SRP007412_testis	0.00 RPM	4.56 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_779 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_779 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_974
Pan troglodytes	retro_ptro_671
Macaca mulatta	retro_mmul_796

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Parental genes homology:

Parental genes homology involve 18 parental genes, and 28 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000012474	1 retrocopy	retro_amel_717,
Bos taurus	ENSBTAG00000018496	4 retrocopies	retro_btau_1022, retro_btau_1550, retro_btau_1552, retro_btau_882,
Cavia porcellus	ENSCPOG00000008768	2 retrocopies	retro_cpor_867, retro_cpor_893,
Dasypus novemcinctus	ENSDNOG00000025897	2 retrocopies	retro_dnov_2282, retro_dnov_2406,
Felis catus	ENSFCAG00000002569	2 retrocopies	retro_fcat_1429, retro_fcat_1654,
Gorilla gorilla	ENSGGOG00000011427	1 retrocopy	retro_ggor_779 ,
Macropus eugenii	ENSMEUG00000004174	1 retrocopy	retro_meug_2071,
Microcebus murinus	ENSMICG00000005971	3 retrocopies	retro_mmur_1128, retro_mmur_1272, retro_mmur_232,
Myotis lucifugus	ENSMLUG00000009148	1 retrocopy	retro_mluc_148,
Macaca mulatta	ENSMMUG00000004547	1 retrocopy	retro_mmul_796,
Mustela putorius furo	ENSMPUG00000013675	1 retrocopy	retro_mputfur_1232,
Mus musculus	ENSMUSG00000031158	1 retrocopy	retro_mmus_1509,
Nomascus leucogenys	ENSNLEG00000007902	1 retrocopy	retro_nleu_1616,
Oryctolagus cuniculus	ENSOCUG00000027418	2 retrocopies	retro_ocun_121, retro_ocun_1451,
Pteropus vampyrus	ENSPVAG00000007643	1 retrocopy	retro_pvam_470,
Ictidomys tridecemlineatus	ENSSTOG00000014173	1 retrocopy	retro_itri_83,
Tarsius syrichta	ENSTSYG00000010396	2 retrocopies	retro_tsyr_1132, retro_tsyr_1703,
Vicugna pacos	ENSVPAG00000009578	1 retrocopy	retro_vpac_92,