RetrogeneDB ID: retro_cjac_226

Retrocopy location

• Organism: Marmoset (Callithrix jacchus)
• Coordinates: 21:34236224..34236752(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSCJAG00000022702
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCJAG00000008784
• Aliases: None
• Description: None

Sequence

>retro_cjac_226
ATGTCCTACAACTGCTGCTCTGGAAACTTCTCCTCCCGCTCCTGTGGGGGCTACATGCGCTACCCAGGCTCCTCCTGTGG
CTCTTCCTACCCCAGCAACCTGGTCTACAGCACTGACCTCTGCTCTCCCAGCACCTGCCAGCTGGGTTCCTCTCTCTACG
GGGGCTGTCAGGAGCCCCGCTGCGAGCCCACCAGCTACCAGACATCCTGTGTGGAGTCCAGCCCCTGCCAGACCTCCTGC
TACCGCCCGAGAACCTCTGTGCTCTTCAGTCCCTGCCAGACGACTTACTCTGGGCCTCTAGGCTTTGGCTCCAGCAGCTG
CCGCCCCCTGGGCTATGGATCCAGGAGCTGCTACTCAGTGGGCTGTGGATCCAGTGGCTTCAGATCCCTGGGTTATGGAG
GCTGCGGCTTCCCTTCCCTGGGCTATGGATCTGGATTCTGCCGCCCAACCTACTTGGCTTCTAGGAGCTGCCAGTCCTCT
TGGTACAGACCAGCCTACGGATCAACCTTCTGTAGATCAACTTGCTGA

Alignment

ORF - retro_cjac_226 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.7 %
• Parental protein coverage: 95.93 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSYNCCSGNFSSRSCGGYMRYPGSSCGSSYPSNLVYSTDLCSPSTCQLGSSLYGGCQEPCCEPTSYQTSC
          MSYNCCSGNFSSRSCGGYMRYPGSSCGSSYPSNLVYSTDLCSPSTCQLGSSLYGGCQEP.CEPTSYQTSC
Retrocopy MSYNCCSGNFSSRSCGGYMRYPGSSCGSSYPSNLVYSTDLCSPSTCQLGSSLYGGCQEPRCEPTSYQTSC

Parental  VESSPCQTSCYRPRTSVLFNPCQTTYSGPLGFGSSSCRPLGYGSRSCYSVGCGSSGFRSLGYGGSSSYPS
          VESSPCQTSCYRPRTSVLF.PCQTTYSGPLGFGSSSCRPLGYGSRSCYSVGCGSSGFRSLGYGG....PS
Retrocopy VESSPCQTSCYRPRTSVLFSPCQTTYSGPLGFGSSSCRPLGYGSRSCYSVGCGSSGFRSLGYGG-CGFPS

Parental  VGYGSSFCHPIYFPPRSFYSSCYQP
          .GYGS.FC.P.Y...RS..SS.Y.P
Retrocopy LGYGSGFCRPTYLASRSCQSSWYRP

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	0.00 RPM	0.00 RPM
SRP051959_heart	0.00 RPM	0.00 RPM
SRP051959_kidney	0.00 RPM	0.00 RPM
SRP051959_liver	0.00 RPM	0.00 RPM
SRP051959_lung	0.00 RPM	0.00 RPM
SRP051959_lymph_node	0.00 RPM	0.00 RPM
SRP051959_skeletal_muscle	0.00 RPM	0.00 RPM
SRP051959_spleen	0.00 RPM	0.00 RPM

ChIP-Seq

Callithrix jacchus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cjac_226 retrocopy.

TSS

Callithrix jacchus was not studied using FANTOM5 data.

Lab

retro_cjac_226 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cjac_226 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000008784	1 retrocopy	retro_cjac_226 ,