RetrogeneDB ID: retro_ggor_646

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 11:50737540..50738478(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PANK3
• Ensembl ID: ENSGGOG00000004947
• Aliases: None
• Description: None

Sequence

>retro_ggor_646
ATGAAGATCAAAGATGGCAAGAAACCCTCTTTCCCATGGTTTGGCATGGACATTGGGGGAACTCTAGTAAACCTGTCGTA
CTTTGAACCTATTGCTATCACAGCAGAGGAAGAACAAGAAGTTGAGAGTTTAAAAAGTATTCGAAAATATTTGATTTCTA
ATGTAGCATGTGGATCCACCGGCATTAGGGATGTACACCTTGAACTGAAAGATTTAACACTTTTTGGCCGAAGAGGGAAC
TTGCACTTTATCAGGTTTCCAACCCAGGACCTGCCTACTTTTATCCAAATGGGAAGAGATAAAAACTTCTCAACATTGCA
AACGGTGCTATGTGCTACAGGAGGTGGGGCCTACAAGTTTGAAAAAGATTTTCGCACAATTGGAAACCTCCACCTGCACA
AACTGGATGAACTTGACTGCCTTGTAAAGGGCTTGCTGTATACAGACTGTTGGTTTCAATGGACATGCGGAGTGCTATTA
TTTAGCTAATGCCTCAGAACCTCAGCAATGCCAAAAGATGCCTTTTAACCTGGATGATCCCTACCCACTGCTTGTAGTGA
ACATTGGCTCAGGAGTCAGTATTTTAGCAGTCAATTCCAAAGACATCTATAAACGAATGACTGGGACAAGCCTTGGGGAG
GGTACCTTTCTGGGTTTATGCAGTTTATTGACTGGCTGTGAAAGTTTTGAAGAGGCTCTTGAAATGGCATTCCAAAGGTG
ACAGCACACAAGCTGACAAGCTGACCCGTGATATTTATGGAGGAGATCATGAAAGATTTGGTTTGCCAGGTTGAGCTGTA
GCATCTAGTTTTAGGAATATGATTTATAAGGAGAAGCGAGAATCTGTTAGTAAAGAAGATCTGGCAAGAGCTACTTTAGT
TACTATCACCAATAACTTCGGTTCTGTGGCACGAATGTGTGCTGTTAATGAGAAAATA

Alignment

ORF - retro_ggor_646 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.48 %
• Parental protein coverage: 84.86 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MKIKDAKKPSFPWFGMDIGGTLVKLSYFEPIDITAEEEQEEVESLKSIRKYLTSNVAYGSTGIRDVHLEL
          MKIKD.KKPSFPWFGMDIGGTLV.LSYFEPI.ITAEEEQE.VESLKSIRKYL.SNVA.GSTGIRDVHLEL
Retrocopy MKIKDGKKPSFPWFGMDIGGTLVNLSYFEPIAITAEEEQE-VESLKSIRKYLISNVACGSTGIRDVHLEL

Parental  KDLTLFGRRGNLHFIRFPTQDLPTFIQMGRDKNFSTLQTVLCATGGGAYKFEKDFRTIGNLHLHKLDELD
          KDLTLFGRRGNLHFIRFPTQDLPTFIQMGRDKNFSTLQTVLCATGGGAYKFEKDFRTIGNLHLHKLDELD
Retrocopy KDLTLFGRRGNLHFIRFPTQDLPTFIQMGRDKNFSTLQTVLCATGGGAYKFEKDFRTIGNLHLHKLDELD

Parental  CLV-KGLLY-IDSVSFNGQAECYYFANASEPERCQKMPFNLDDPYPLLVVNIGSGVSILAVHSKDNYKRV
          CLV.KGL...I..V.FNG.AECYY.ANASEP..CQKMPFNLDDPYPLLVVNIGSGVSILAV.SKD.YKR.
Retrocopy CLV<KGLAV<IQTVGFNGHAECYYLANASEPQQCQKMPFNLDDPYPLLVVNIGSGVSILAVNSKDIYKRM

Parental  TGTSLGGGTFLGLCSLLTGCESFEEALEMA-SKGDSTQADKLVRDIYGGDYERFGLPGWAVASSFGNMIY
          TGTSLG.GTFLGLCSLLTGCESFEEALEMA.SKGDSTQADKL.RDIYGGD.ERFGLPG.AVASSF.NMIY
Retrocopy TGTSLGEGTFLGLCSLLTGCESFEEALEMA>SKGDSTQADKLTRDIYGGDHERFGLPG*AVASSFRNMIY

Parental  KEKRESVSKEDLARATLVTITNNIGSVARMCAVNEKI
          KEKRESVSKEDLARATLVTITNN.GSVARMCAVNEKI
Retrocopy KEKRESVSKEDLARATLVTITNNFGSVARMCAVNEKI

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	14.34 RPM
SRP007412_cerebellum	0.00 RPM	16.39 RPM
SRP007412_heart	0.00 RPM	1.66 RPM
SRP007412_kidney	0.00 RPM	11.49 RPM
SRP007412_liver	0.00 RPM	27.93 RPM
SRP007412_testis	0.00 RPM	76.66 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_646 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_646 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_779
Pan troglodytes	retro_ptro_608

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000011633	4 retrocopies	retro_chof_1188, retro_chof_1391, retro_chof_1837, retro_chof_830,
Callithrix jacchus	ENSCJAG00000015550	1 retrocopy	retro_cjac_2037,
Homo sapiens	ENSG00000120137	1 retrocopy	retro_hsap_779,
Gorilla gorilla	ENSGGOG00000004947	1 retrocopy	retro_ggor_646 ,
Nomascus leucogenys	ENSNLEG00000004896	5 retrocopies	retro_nleu_1430, retro_nleu_144, retro_nleu_2975, retro_nleu_3058, retro_nleu_3099,
Pongo abelii	ENSPPYG00000016024	1 retrocopy	retro_pabe_2848,
Pan troglodytes	ENSPTRG00000017509	1 retrocopy	retro_ptro_608,
Tursiops truncatus	ENSTTRG00000016157	3 retrocopies	retro_ttru_1947, retro_ttru_29, retro_ttru_994,