RetrogeneDB ID: retro_ggor_3065

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: X:133878354..133879358(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: STK24
• Ensembl ID: ENSGGOG00000001983
• Aliases: None
• Description: None

Sequence

>retro_ggor_3065
TGGATAATAATGGAATATCCTGATGGAGGCTCCGCACTAGATCTGTTAGAACCTGGCCCGTTAGATGAAACCCAGATCAT
TACTATATTAAAAGAAATACTGAAAGGACTTGATTACCTCCATTCGGAGAAGAAAATCCATAGAGATGTTAAAGCGGCCA
ACGTCCTGCTGTCTGAGCACTGCGAGGTGAAGCTGGTGGACTTTGGCATGGCTGGCCAACTGACAGACACCCAGACCAAA
AGGAACACTTTCGTGGGCACCCCGTTCTGGATAGCACCCGAGGTCATCAAACAGTCGGCCTATGACTCAAAGGCAGACAT
CTGGTCCCTGGGCATAACAACTATTTAACTTGCAAAAGGAGAACCACCTTATTCCAAGCTGCATCCCATGAAAGTTTCAT
TCCTTATTCCAAAGAACAACCCACCAACGTTGGAAGAAAACTACAGTAAACCCCTCAAGGAGTTTGTGGAGGCCTGTTTG
AATAAAGAGCCGAGCTTTAGACCCACTGCTAAGGAGTTATTGAAGCACAAGTTTATACTACGTGATGCAAAGAAAACTTC
CTACTTGACCGAGCTCATCGACAGGTATAAGAGATGGAGGGCAAAGCAGAGCCAAGAAGACTCGAGCTCCGAGGATTCCA
ACTCGGAAACAGATGGCCAAGATTCAGTGGGGCAGCGATTCTGGGGACTGGATCTTCACAATCCAAGAAAAAGATCCCAG
GAATCTTGAGAATGGAGCTCTTCAGCCATCGGATGTAGACAAATAAGATGAAAGACATCCCAAAGAGCCCTTTCTCTCAG
TGTTTATCTACAATTATTTCTCCTCTGCTTGCAGAGTTGAAGAAGAGCCAGGCGTGCGGAGGGAACTTGGGGTCCACTGA
AGAGCTGCGAGGGGCCGTCTACCTGGTGGAGGAGGTGTGCCACCGCATCTCCGACACCATGGTGGGCCAGCTCCTGCAGC
AGCTCCACAGATATTCTCTAAGTGGTGGAGAAACTTCATCCCAC

Alignment

ORF - retro_ggor_3065 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.25 %
• Parental protein coverage: 79.62 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  WFLLLNWGGGEASDALEPGPLDETQIATILREILKGLDYLHSEKKIHRDIKAANVLLSEHGEVKLADFGV
          W.......GG.A.D.LEPGPLDETQI.TIL.EILKGLDYLHSEKKIHRD.KAANVLLSEH.EVKL.DFG.
Retrocopy WIIMEYPDGGSALDLLEPGPLDETQIITILKEILKGLDYLHSEKKIHRDVKAANVLLSEHCEVKLVDFGM

Parental  AGQLTDTQIKRNTFVGTPFWMAPEVIKQSAYDSKADIWSLGITAIELARGEPPHSELHPMKVLFLIPKNN
          AGQLTDTQ.KRNTFVGTPFW.APEVIKQSAYDSKADIWSLGIT.I.LA.GEPP.S.LHPMKV.FLIPKNN
Retrocopy AGQLTDTQTKRNTFVGTPFWIAPEVIKQSAYDSKADIWSLGITTI*LAKGEPPYSKLHPMKVSFLIPKNN

Parental  PPTLEGNYSKPLKEFVEACLNKEPSFRPTAKELLKHKFILRNAKKTSYLTELIDRYKRWKAEQSHDDSSS
          PPTLE.NYSKPLKEFVEACLNKEPSFRPTAKELLKHKFILR.AKKTSYLTELIDRYKRW.A.QS..DSSS
Retrocopy PPTLEENYSKPLKEFVEACLNKEPSFRPTAKELLKHKFILRDAKKTSYLTELIDRYKRWRAKQSQEDSSS

Parental  EDSDAETDGQAS-GGSDSGDWIFTIREKDPKNLENGALQPSDLDRNKMKDIPKRP-FSQCLSTIISPLFA
          EDS..ETDGQ.S..GSDSGDWIFTI.EKDP.NLENGALQPSD.D.......PK.P.FSQCLSTIISPL.A
Retrocopy EDSNSETDGQDS>WGSDSGDWIFTIQEKDPRNLENGALQPSDVDK*DERH-PKEP>FSQCLSTIISPLLA

Parental  ELKEKSQACGGNLGSIEELRGAIYLAEEACPGISDTMVAQLVQRLQRYSLSGGGTSSH
          ELK.KSQACGGNLGS.EELRGA.YL.EE.C..ISDTMV.QL.Q.L.RYSLSGG.TSSH
Retrocopy ELK-KSQACGGNLGSTEELRGAVYLVEEVCHRISDTMVGQLLQQLHRYSLSGGETSSH

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	0.72 RPM	57.69 RPM
SRP007412_cerebellum	0.20 RPM	34.67 RPM
SRP007412_heart	0.19 RPM	19.39 RPM
SRP007412_kidney	1.06 RPM	81.57 RPM
SRP007412_liver	0.18 RPM	44.21 RPM
SRP007412_testis	0.93 RPM	58.95 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_3065 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_3065 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4907
Macaca mulatta	retro_mmul_2640
Callithrix jacchus	retro_cjac_4221

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004508	1 retrocopy	retro_cjac_4221,
Cavia porcellus	ENSCPOG00000006610	1 retrocopy	retro_cpor_490,
Homo sapiens	ENSG00000102572	1 retrocopy	retro_hsap_4907,
Gorilla gorilla	ENSGGOG00000001983	1 retrocopy	retro_ggor_3065 ,
Gorilla gorilla	ENSGGOG00000004267	1 retrocopy	retro_ggor_956,
Macaca mulatta	ENSMMUG00000009173	1 retrocopy	retro_mmul_2640,
Nomascus leucogenys	ENSNLEG00000007854	1 retrocopy	retro_nleu_2352,