RetrogeneDB ID: retro_mmus_666

Retrocopy location

• Organism: Mouse (Mus musculus)
• Coordinates: 10:91258801..91259350(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: Rsrc1
• Ensembl ID: ENSMUSG00000034544
• Aliases: Rsrc1, 1200013F24Rik, SRrp53
• Description: arginine/serine-rich coiled-coil 1 [Source:MGI Symbol;Acc:MGI:1914130]

Sequence

>retro_mmus_666
CACTGGAGGCGCTCCTCTTCAAGCAGCTCTTCAGACAGCAGGACATACAGCCACAAGAAGGGTGGGAGGAGGCCGAGGTC
CAACTCAAGATCCTGGTCTAGAGACCGCCAGCCTCGCTCACATTCTTATGAGAGGAGACGCAGGCTCAGATCAAGCAGCA
GCTCTTCTTATGGCTCCAGAAGGAAAAGAAGTCGCAGTCATTCCAGGGGCCGAGGGAAACCCTATAGAGTTCATAGGTCT
CGGTCAAAAAGCAGAACAAGAAGGTCCAGGTCAAGGCCTCATCCACGCTCACATTGTAGAAGCAGTGAAAGATCCAGTCA
CAGAAGAAATCGTAGTAGGTCCAGAGACAGAGACAGACATAAAGTCTGGGACAAAGAGAAAAGAGAAAAGAAGGATAAAG
GCAAAGACAAAGAAGTGCACAGCATCAAACGCAGGGATTCTGGAAACATCAAAGCTGCATTAGAACATCTGCCTCCAGCT
GAGCAGGCCAAAGCCAGACTACAATTGGTCCTTGAAGCTGCTGCAAAAGCTGATGAAGCATTAATAGCC

Alignment

ORF - retro_mmus_666 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.3 %
• Parental protein coverage: 55.09 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  HRRRSSSSSSSDSRTYSRKKGGRRPRSDSRSWSRDRQLRSHSYERRRRRRSSSSSSYGSRRKRSRSRSRG
          H.RRSSSSSSSDSRTYS.KKGGRRPRS.SRSWSRDRQ.RSHSYERRRR.RSSSSSSYGSRRKRSRS.SRG
Retrocopy HWRRSSSSSSSDSRTYSHKKGGRRPRSNSRSWSRDRQPRSHSYERRRRLRSSSSSSYGSRRKRSRSHSRG

Parental  RGKPYRVQRSRSKSRTRRSRSRPRPRSHSRSSERSSHRRTRSRSRDRDRRKVRDKEKREKEKDKGKDKEV
          RGKPYRV.RSRSKSRTRRSRSRP.PRSH.RSSERSSHRR.RSRSRDRDR.KV.DKEKREK.KDKGKDKEV
Retrocopy RGKPYRVHRSRSKSRTRRSRSRPHPRSHCRSSERSSHRRNRSRSRDRDRHKVWDKEKREK-KDKGKDKEV

Parental  HSIKRGDSGNIKAGLEHLPPAEQAKARLQLVLEAAAKADEALKA
          HSIKR.DSGNIKA.LEHLPPAEQAKARLQLVLEAAAKADEAL.A
Retrocopy HSIKRRDSGNIKAALEHLPPAEQAKARLQLVLEAAAKADEALIA

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	0.00 RPM	35.86 RPM
SRP007412_cerebellum	0.00 RPM	37.39 RPM
SRP007412_heart	0.03 RPM	10.09 RPM
SRP007412_kidney	0.00 RPM	16.19 RPM
SRP007412_liver	0.00 RPM	16.14 RPM
SRP007412_testis	0.05 RPM	57.36 RPM

ChIP-Seq

RNA Polymerase II activity near the 5' end of retro_mmus_666 was not detected

EST

No EST(s) were mapped for retro_mmus_666 retrocopy.

TSS

No TSS is located nearby retro_mmus_666 retrocopy 5' end.

Lab

retro_mmus_666 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmus_666 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

Parental genes homology involve 8 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004797	1 retrocopy	retro_cjac_553,
Cavia porcellus	ENSCPOG00000000876	2 retrocopies	retro_cpor_618, retro_cpor_671,
Echinops telfairi	ENSETEG00000017217	1 retrocopy	retro_etel_1555,
Homo sapiens	ENSG00000174891	1 retrocopy	retro_hsap_4281,
Mus musculus	ENSMUSG00000034544	1 retrocopy	retro_mmus_666 ,
Nomascus leucogenys	ENSNLEG00000004137	1 retrocopy	retro_nleu_2851,
Rattus norvegicus	ENSRNOG00000012639	2 retrocopies	retro_rnor_2454, retro_rnor_577,
Tupaia belangeri	ENSTBEG00000001973	13 retrocopies	retro_tbel_1285, retro_tbel_1372, retro_tbel_2078, retro_tbel_2400, retro_tbel_2545, retro_tbel_3145, retro_tbel_3313, retro_tbel_3748, retro_tbel_3834, retro_tbel_4317, retro_tbel_4458, retro_tbel_4494, retro_tbel_840,