RetrogeneDB ID: retro_ggor_2728

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 8:54376598..54377757(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SEPT10
• Ensembl ID: ENSGGOG00000013659
• Aliases: None
• Description: None

Sequence

>retro_ggor_2728
ATATTCTGTGTGGGGGAAACTGGAATTAGAAAATCAACACTGACTGACACATTGTTTAATACTAATTTTGAAGACTATGA
ATCCTCACATTTTTGCCCAAATGTTAAACTTAAAGCTCAGACATATGAACTCTAGGAAAGTAATGTTCGATTGAAATTGA
CCATTGTGAATACAGTGGGATTTGGTGACCAAATAAATAAAGAAGAGAGTTACCAACCGATAGTTGACTACATAGATGCT
CAGTTTGAGGCCTATCTCCAAGAATAACTGAAGATTAAACGTTCTCTCTTTACCTACCATGATTCTCGCATCCGTGTGTG
CCTCTACTTCATTTCACCGACAGGCCACTCTCTGAAGACACTTGATCTCTTAACCATGAAGAACCTTGACAGCAAGGTAA
ACATTATACCAGTGATTGCCAAAGCAGATACGGTTTCTAAAACTGAATTACATAAGTTTAAGATCAAGTTCATGAGTGAA
TTGGTCAGCAATGGCGTCCAGATATACCAGTTCCCAACGGATGATGACACTATTGCTAAGGTCAACACTGCAATGAATGG
ACAGTTGCCATTTGCTGTTGTGGGAAGTATGGATGAGGTAAAAGTCGGAAACAAGATGGTTAAAGCTCGCCAGTACCCTT
TGGGTGTTGTACAAGTGGAAAATGAAAACCACTGTGACTTTGTAAAGCTGCGGGAAATGTTCATTTGTACAAATATGGAG
GACCTGCGATAGCAGACCCATACCAGGCACTATGAGCTTTACAGGCGCTGCAAATTGGAGGAAATGGGCTTTACAGATGT
GGGCCCAGAAAACAAGCCGGTCAGTCTTCAAGAGACCTATGAAGCCAAAAGACATGAGTTCCATGGTGAACGTCAGAGGA
AGGAAGAAGAAATGAAACAGATGTTTGTGCAGCCAGTGAAGGAGAAAAGAAGCCATATTGAAAGAAGCTGAGAGAGAGCT
ACAGGCCAAATTTGAGCACCTTAAGAGACTTCACCAAGAAGAGAGAATGAAGCTTGAAGAACAGAGAAGACTTTTGGAAG
AAGAAATAATTGCTTTCTCTAAAAAGAAAGCTACCTCTGAGATATTTCACAGCCAGTCCTTTCTGGCAACAGGCAGCAAC
CTGAGTAAGGACAAGGACAATAAGAACTCCAGTTTTTTG

Alignment

ORF - retro_ggor_2728 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.96 %
• Parental protein coverage: 85.02 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ILCVGETGIGKSTLIDTLFNTNFEDYESSHFCPNVKLKAQTYELQESNVQLKLTIVNTVGFGDQINKEES
          I.CVGETGI.KSTL.DTLFNTNFEDYESSHFCPNVKLKAQTYEL.ESNV.LKLTIVNTVGFGDQINKEES
Retrocopy IFCVGETGIRKSTLTDTLFNTNFEDYESSHFCPNVKLKAQTYEL*ESNVRLKLTIVNTVGFGDQINKEES

Parental  YQPIVDYIDAQFEAYLQEELKIKRSLFTYHDSRIHVCLYFISPTGHSLKTLDLLTMKNLDSKVNIIPVIA
          YQPIVDYIDAQFEAYLQE.LKIKRSLFTYHDSRI.VCLYFISPTGHSLKTLDLLTMKNLDSKVNIIPVIA
Retrocopy YQPIVDYIDAQFEAYLQE*LKIKRSLFTYHDSRIRVCLYFISPTGHSLKTLDLLTMKNLDSKVNIIPVIA

Parental  KADTVSKTELQKFKIKLMSELVSNGVQIYQFPTDDDTIAKVNAAMNGQLPFAVVGSMDEVKVGNKMVKAR
          KADTVSKTEL.KFKIK.MSELVSNGVQIYQFPTDDDTIAKVN.AMNGQLPFAVVGSMDEVKVGNKMVKAR
Retrocopy KADTVSKTELHKFKIKFMSELVSNGVQIYQFPTDDDTIAKVNTAMNGQLPFAVVGSMDEVKVGNKMVKAR

Parental  QYPWGVVQVENENHCDFVKLREMLICTNMEDLREQTHTRHYELYRRCKLEEMGFTDVGPENKPVSLQETY
          QYP.GVVQVENENHCDFVKLREM.ICTNMEDLR.QTHTRHYELYRRCKLEEMGFTDVGPENKPVSLQETY
Retrocopy QYPLGVVQVENENHCDFVKLREMFICTNMEDLR*QTHTRHYELYRRCKLEEMGFTDVGPENKPVSLQETY

Parental  EAKRHEFHGERQRKEEEMKQMFVQRVKE-KEAILKEAERELQAKFEHLKRLHQEERMKLEEKRRLLEEEI
          EAKRHEFHGERQRKEEEMKQMFVQ.VKE.KEAILKEAERELQAKFEHLKRLH.................I
Retrocopy EAKRHEFHGERQRKEEEMKQMFVQPVKE>KEAILKEAERELQAKFEHLKRLHXXXXXXXXXXXXXXXXXI

Parental  IAFSKKKATSEIFHSQSFLATGSNLRKDKDRKNSNFL
          IAFSKKKATSEIFHSQSFLATGSNL.KDKD.KNS.FL
Retrocopy IAFSKKKATSEIFHSQSFLATGSNLSKDKDNKNSSFL

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	5.85 RPM
SRP007412_cerebellum	0.00 RPM	4.18 RPM
SRP007412_heart	0.00 RPM	5.57 RPM
SRP007412_kidney	0.04 RPM	30.63 RPM
SRP007412_liver	0.05 RPM	33.05 RPM
SRP007412_testis	8.60 RPM	133.95 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_2728 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2728 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4060
Pan troglodytes	retro_ptro_2753
Pongo abelii	retro_pabe_3335

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017754	3 retrocopies	retro_cjac_1736, retro_cjac_2879, retro_cjac_828,
Homo sapiens	ENSG00000186522	1 retrocopy	retro_hsap_4060,
Gorilla gorilla	ENSGGOG00000001175	1 retrocopy	retro_ggor_2816,
Gorilla gorilla	ENSGGOG00000013659	1 retrocopy	retro_ggor_2728 ,
Myotis lucifugus	ENSMLUG00000017273	1 retrocopy	retro_mluc_2285,
Nomascus leucogenys	ENSNLEG00000001328	1 retrocopy	retro_nleu_2111,
Pongo abelii	ENSPPYG00000012144	1 retrocopy	retro_pabe_3335,