RetrogeneDB ID: retro_cjac_1967

Retrocopy location

• Organism: Marmoset (Callithrix jacchus)
• Coordinates: 2:152831574..152831975(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCJAG00000031571
• Aliases: None
• Description: Sulfurtransferase [Source:UniProtKB/TrEMBL;Acc:F7BKF1]

Sequence

>retro_cjac_1967
TTGAAGTCAATAAACAGAAACCACCACAATTTTTATGATGCTATTTCTAAGATGTCACTTATAAGGAACTTAAAAACCTA
TTGAATTCTAAAAATATTTTGTTAATTGATGTTAGGGAGACATGGGAAATTCTGGAGAATGGAAAAATCCCTGCGTCTAT
CAATATACCATTGGATTAGGTAGGTGAGCCTCTACAGATGAACTCAAGAGAACGCAAAGAGAAGTACAGTAAAGTAAAGC
CATCCAAACCTGGCAACTTAGTGTTTTCTCGTTTAGCCGGAGTAAGAAGCAAGAAGGCTCTGGACACTGCAGCATCTCTG
GGCTTTCACAGTGCTCAACGCTATGTTGGAGGATGTAAAGAATGGGTGACCTATGAATTTTCAGAGAAGAAACAACGAAA
C

Alignment

ORF - retro_cjac_1967 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.22 %
• Parental protein coverage: 99.26 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LQSIKGNHHNFYTAISK-DVTYKELKNLLNSKNIMLIDVREAWEILEYGKIPGSINIPLDEVGEALQMNP
          L.SI..NHHNFY.AISK.DVTYKELKNLLNSKNI.LIDVRE.WEILE.GKIP.SINIPLD.VGE.LQMN.
Retrocopy LKSINRNHHNFYDAISK<DVTYKELKNLLNSKNILLIDVRETWEILENGKIPASINIPLD*VGEPLQMNS

Parental  RDFKEKYNEVKPSKSDNLVFSCLAGVRSKKALDTAVSLGFHSAQHYAGGWKEWVTYEFSEKKQGN
          R..KEKY..VKPSK..NLVFS.LAGVRSKKALDTA.SLGFHSAQ.Y.GG.KEWVTYEFSEKKQ.N
Retrocopy RERKEKYSKVKPSKPGNLVFSRLAGVRSKKALDTAASLGFHSAQRYVGGCKEWVTYEFSEKKQRN

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	2.04 RPM
SRP051959_heart	0.00 RPM	3.28 RPM
SRP051959_kidney	0.00 RPM	2.75 RPM
SRP051959_liver	0.00 RPM	2.79 RPM
SRP051959_lung	0.00 RPM	2.26 RPM
SRP051959_lymph_node	0.00 RPM	1.71 RPM
SRP051959_skeletal_muscle	0.00 RPM	1.97 RPM
SRP051959_spleen	0.00 RPM	1.91 RPM

ChIP-Seq

Callithrix jacchus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cjac_1967 retrocopy.

TSS

Callithrix jacchus was not studied using FANTOM5 data.

Lab

retro_cjac_1967 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cjac_1967 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008959	1 retrocopy	retro_amel_1055,
Bos taurus	ENSBTAG00000038931	1 retrocopy	retro_btau_1353,
Canis familiaris	ENSCAFG00000030791	1 retrocopy	retro_cfam_606,
Callithrix jacchus	ENSCJAG00000031571	1 retrocopy	retro_cjac_1967 ,
Equus caballus	ENSECAG00000024361	1 retrocopy	retro_ecab_791,
Gorilla gorilla	ENSGGOG00000022586	1 retrocopy	retro_ggor_1345,
Otolemur garnettii	ENSOGAG00000025707	2 retrocopies	retro_ogar_2601, retro_ogar_527,