RetrogeneDB ID: retro_ggor_1892

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 3:151108662..151109223(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSGGOG00000028291
• Aliases: None
• Description: None

Sequence

>retro_ggor_1892
GTGGCGGCGTCTGTGATGGTCCGGAGCGAGGCCTCGGCCAATCTGGGCGGCGTGCCCAGCAAGAGATTAAAGATGCAGTA
CGCCACGGGGCCGCTGCTCAAGTTCCAGATTTGTGTTTCCTGAGGTTATAGGTGGGTGTTTGAGGAGTACATGTGGGTTA
TTAGCCAGGGGTACCCAAACATCCGTATTGAAGGAGAGAATTACCTCCCTCAACCAAGGTATAGACACATAGCATCTTTC
CTGTCAGTCTTCAAACTAGTATTAATAGGCTTAATAATTGTTGGCAAGGATCCTTTTGCTTTCTTTGGCATGCAAGCTCC
TAGCATCTGGCAGTGGGGCCAAGAAAATAAGGTCTATGCATGTATGATGGTTTTCTTCTTGAGCAACATGATTGAGAACC
AGTGTATGTCAACAGGTGCATTTGAGATAACTTTAAATGATGTACCTGTGTGGTCTAAGCTGGAATCCGGTCACCTTCCA
TCCATGCAACAACTTGTTCAAATTCTTGACAATGAAATGAAGCTCAATGTGCATATGGATTCAATCCCACACCATCGATC
A

Alignment

ORF - retro_ggor_1892 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.26 %
• Parental protein coverage: 95.9 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VAASAMVRSEASANLGGVPSKRLKMQYATGPLLKFQICVSUGYRRVFEEYMRVISQRYPDIRIEGENYLP
          VAAS.MVRSEASANLGGVPSKRLKMQYATGPLLKFQICVS.GYR.VFEEYM.VISQ.YP.IRIEGENYLP
Retrocopy VAASVMVRSEASANLGGVPSKRLKMQYATGPLLKFQICVS*GYRWVFEEYMWVISQGYPNIRIEGENYLP

Parental  QPIYRHIASFLSVFKLVLIGLIIVGKDPFAFFGMQAPSIWQWGQENKVYACMMVFFLSNMIENQCMSTGA
          QP.YRHIASFLSVFKLVLIGLIIVGKDPFAFFGMQAPSIWQWGQENKVYACMMVFFLSNMIENQCMSTGA
Retrocopy QPRYRHIASFLSVFKLVLIGLIIVGKDPFAFFGMQAPSIWQWGQENKVYACMMVFFLSNMIENQCMSTGA

Parental  FEITLNDVPVWSKLESGHLPSMQQLVQILDNEMKLNVHMDSIPHHRS
          FEITLNDVPVWSKLESGHLPSMQQLVQILDNEMKLNVHMDSIPHHRS
Retrocopy FEITLNDVPVWSKLESGHLPSMQQLVQILDNEMKLNVHMDSIPHHRS

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	1.34 RPM	9.35 RPM
SRP007412_cerebellum	0.55 RPM	8.16 RPM
SRP007412_heart	0.06 RPM	1.59 RPM
SRP007412_kidney	1.35 RPM	10.67 RPM
SRP007412_liver	0.87 RPM	6.70 RPM
SRP007412_testis	0.73 RPM	11.29 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_1892 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1892 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 13 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000001394	2 retrocopies	retro_chof_1199, retro_chof_768,
Equus caballus	ENSECAG00000025123	2 retrocopies	retro_ecab_441, retro_ecab_662,
Homo sapiens	ENSG00000198843	2 retrocopies	retro_hsap_3384, retro_hsap_4126,
Gorilla gorilla	ENSGGOG00000028291	1 retrocopy	retro_ggor_1892 ,
Macropus eugenii	ENSMEUG00000014738	3 retrocopies	retro_meug_1766, retro_meug_1786, retro_meug_2036,
Monodelphis domestica	ENSMODG00000021273	1 retrocopy	retro_mdom_467,
Mus musculus	ENSMUSG00000075700	1 retrocopy	retro_mmus_3111,
Nomascus leucogenys	ENSNLEG00000003284	2 retrocopies	retro_nleu_2473, retro_nleu_972,
Ochotona princeps	ENSOPRG00000014425	2 retrocopies	retro_opri_1052, retro_opri_584,
Pan troglodytes	ENSPTRG00000039581	1 retrocopy	retro_ptro_2804,
Rattus norvegicus	ENSRNOG00000013507	1 retrocopy	retro_rnor_2069,
Sarcophilus harrisii	ENSSHAG00000018506	1 retrocopy	retro_shar_629,
Tarsius syrichta	ENSTSYG00000007410	3 retrocopies	retro_tsyr_1515, retro_tsyr_167, retro_tsyr_46,