RetrogeneDB ID: retro_cjac_2751

Retrocopy location

• Organism: Marmoset (Callithrix jacchus)
• Coordinates: 6:107833687..107834316(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NEK7
• Ensembl ID: ENSCJAG00000004930
• Aliases: None
• Description: None

Sequence

>retro_cjac_2751
AATGTAATAAAATATTACACCTCATTCATTGAAGATAATGAACTAAACATAGTGTTGGAACTGGCAGATGCTGGCGACCT
ATCCAGAATGATAAAGCATTTTAAGAAGCAAAAGAGGCTAATTCCTGAAAGAACTGTCTGGAAGTACTTTGTTCAGCTTT
GCAGTACACTGGAACACATGCATACTCAAAGAGTCAGGCATAGAGATATAAAACCAGCCAATGTGTTCATTGCAGCCACT
GGGGTGGTAAAACATGGAGATCTTGGGCTTAGCCGTTTTTCAACTCAAAAACCACAGCTGCACATTCTTTAGTTGGTGCA
CCTTATTACATGTCTCCAGAGAGAATACATGAAAATGGATACAACTTCAAATCTGACATCTGGTCTCTCGGCTGTCTACT
ATATGAGATGGCTGCATTACAGAGTCCTGTCTATGGTGACAAAATGAATTTATACTCGCTGTGTAAGAAGATAGAAGAGT
GTGACTACTCACCTCTTCCTTCAGATCACTATTCAGAAGATCTATGACAGGTAGTTAATATGTGCACCAACCCAGATCCA
GAGAAGCGACCAGGCGTCACCTATGTTTGTGACGTAGCAAAGAGGATGCATGCCTGCACTGCAAGCAGC

Alignment

ORF - retro_cjac_2751 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.67 %
• Parental protein coverage: 69.74 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  NVIKYYASFIEDNELNIVLELADAGDLSRMIKKHFKKQKRLIPERTVWKYFVQLCSALEHMHSRRVMHRD
          NVIKYY.SFIEDNELNIVLELADAGDLSRMIK.HFKKQKRLIPERTVWKYFVQLCS.LEHMH..RV.HRD
Retrocopy NVIKYYTSFIEDNELNIVLELADAGDLSRMIK-HFKKQKRLIPERTVWKYFVQLCSTLEHMHTQRVRHRD

Parental  IKPANVFITATGVVKLGDLGLGRF-FSSKTTAAHSLAVGTPYYMSPERIHENGYNFKSDIWSLGCLLYEM
          IKPANVFI.ATGVVK.GDLGL.RF.F.SKTTAAHSL.VG.PYYMSPERIHENGYNFKSDIWSLGCLLYEM
Retrocopy IKPANVFIAATGVVKHGDLGLSRF<FNSKTTAAHSL-VGAPYYMSPERIHENGYNFKSDIWSLGCLLYEM

Parental  AALQSPFYGDKMNLYSLCKKIEQCDYPPLPSDHYSEELRQLVNMCINPDPEKRPDVTYVYDVAKRMHACT
          AALQSP.YGDKMNLYSLCKKIE.CDY.PLPSDHYSE.L.Q.VNMC.NPDPEKRP.VTYV.DVAKRMHACT
Retrocopy AALQSPVYGDKMNLYSLCKKIEECDYSPLPSDHYSEDL*QVVNMCTNPDPEKRPGVTYVCDVAKRMHACT

Parental  ASS
          ASS
Retrocopy ASS

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
SRP051959_colon	0.11 RPM	33.24 RPM
SRP051959_heart	0.23 RPM	107.17 RPM
SRP051959_kidney	0.07 RPM	43.75 RPM
SRP051959_liver	0.02 RPM	20.73 RPM
SRP051959_lung	0.13 RPM	65.85 RPM
SRP051959_lymph_node	0.18 RPM	52.24 RPM
SRP051959_skeletal_muscle	0.20 RPM	90.08 RPM
SRP051959_spleen	0.02 RPM	58.45 RPM

ChIP-Seq

Callithrix jacchus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cjac_2751 retrocopy.

TSS

Callithrix jacchus was not studied using FANTOM5 data.

Lab

retro_cjac_2751 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cjac_2751 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004930	1 retrocopy	retro_cjac_2751 ,
Otolemur garnettii	ENSOGAG00000004117	1 retrocopy	retro_ogar_2157,