RetrogeneDB ID: retro_ggor_2726

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 8:52427240..52427777(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000024314
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SEC11A
• Ensembl ID: ENSGGOG00000011129
• Aliases: None
• Description: None

Sequence

>retro_ggor_2726
ATACTGTCTCTAGACTTTTTGGATGATTTGCAGTGGATGAACAAGTGGCAGCTCTATTATCAAGTCCTAAATTTCGGAAT
GATTGTCTCATCAGCACTCATGATCTGGAAGGGGTTAATGGTAATAACTGGAAGTGAAAGTCCAATTGTAGTGTTGCTCA
GTGGCATCATGGAACCTGCATTTCATAGAGGATATCTTCTCTTTCTAACAAAGCGAGTTGAAGATCCCATACGAGTGGGA
GAAATTGCTGTTCTAAGGATAGAAGAAAGAAAGATTCCTATAGTTCACCGAGTCTTGAAGATTCATGAAAAGCAAAATGG
GCATATCAAGTTTTTGACCAAAGAAGATAATAATGAGGTTGATGACAGAGGCCTCTATAAACAAGAACAACATTGGCTAG
AGAAAAAAGATGTCGTGGGGAGAGCCAGGGGATTTGTTCCTTATATTGGAATTGGGACGAGCCTCATGAATGACTATCCT
AAATTTAAGTATGAAGTGCTCTTTTTGCTGGGTTTATTTGTGCTGATCCATCGTGAG

Alignment

ORF - retro_ggor_2726 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.83 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MLSLDFLDDVRRMNKRQLYYQVLNFGMIVSSALMIWKGLMVITGSESPIVVVLSGSMEPAFHRGDLLFLT
          .LSLDFLDD...MNK.QLYYQVLNFGMIVSSALMIWKGLMVITGSESPIVV.LSG.MEPAFHRG.LLFLT
Retrocopy ILSLDFLDDLQWMNKWQLYYQVLNFGMIVSSALMIWKGLMVITGSESPIVVLLSGIMEPAFHRGYLLFLT

Parental  NRVEDPIRVGEIVVFRIEGREIPIVHRVLKIHEKQNGHIKFLTKGDNNAVDDRGLYKQGQHWLEKKDVVG
          .RVEDPIRVGEI.V.RIE.R.IPIVHRVLKIHEKQNGHIKFLTK.DNN.VDDRGLYKQ.QHWLEKKDVVG
Retrocopy KRVEDPIRVGEIAVLRIEERKIPIVHRVLKIHEKQNGHIKFLTKEDNNEVDDRGLYKQEQHWLEKKDVVG

Parental  RARGFVPYIGIVTILMNDYPKFKYAVLFLLGLFVLVHRE
          RARGFVPYIGI.T.LMNDYPKFKY.VLFLLGLFVL.HRE
Retrocopy RARGFVPYIGIGTSLMNDYPKFKYEVLFLLGLFVLIHRE

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	0.05 RPM	17.93 RPM
SRP007412_cerebellum	0.00 RPM	15.88 RPM
SRP007412_heart	0.00 RPM	21.42 RPM
SRP007412_kidney	0.00 RPM	89.06 RPM
SRP007412_liver	0.00 RPM	50.65 RPM
SRP007412_testis	0.00 RPM	60.40 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_2726 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2726 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4058
Pan troglodytes	retro_ptro_2751
Pongo abelii	retro_pabe_3333
Macaca mulatta	retro_mmul_2343

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000012889	1 retrocopy	retro_cfam_1416,
Callithrix jacchus	ENSCJAG00000016146	1 retrocopy	retro_cjac_1496,
Felis catus	ENSFCAG00000029786	2 retrocopies	retro_fcat_1178, retro_fcat_1908,
Homo sapiens	ENSG00000140612	1 retrocopy	retro_hsap_4058,
Gorilla gorilla	ENSGGOG00000011129	1 retrocopy	retro_ggor_2726 ,
Monodelphis domestica	ENSMODG00000019364	1 retrocopy	retro_mdom_726,
Pongo abelii	ENSPPYG00000006881	1 retrocopy	retro_pabe_3333,
Pan troglodytes	ENSPTRG00000007404	1 retrocopy	retro_ptro_2751,
Tupaia belangeri	ENSTBEG00000012320	3 retrocopies	retro_tbel_1139, retro_tbel_2280, retro_tbel_745,
Tursiops truncatus	ENSTTRG00000005833	1 retrocopy	retro_ttru_1237,