RetrogeneDB ID: retro_mmus_1383

Retrocopy location

• Organism: Mouse (Mus musculus)
• Coordinates: 15:16599957..16600562(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: Mrgbp
• Ensembl ID: ENSMUSG00000027569
• Aliases: Mrgbp, 1600027N09Rik, AW060503, C80444
• Description: MRG/MORF4L binding protein [Source:MGI Symbol;Acc:MGI:1920497]

Sequence

>retro_mmus_1383
GAGGCTGAGATGGGCAGCACCGGCACCCCAGGTGACAAGAGCCAAGGCAAGTCATCCCTGAGTCCTGCTTAGGAGATGGT
GGTGTGGAGCCCTGAAGTGGAGGTGTGCCTCTTTCACGCCATGCGGGGCCACAAAGCTATTGAGGTGAATCAACACTTCC
ACATGTTTTGTATCCAAGACAAGTTCAACCAGAATATTGGGTGCCAGGTTCCATCCACAGTGATCTGGGACCATCTAAGC
ACTACTTATGATATGCAGGCACTGCACGAGTCTGAGATTCTTTCATTCCCAAATCCAGAGAGGAACTTTATCCTCCAGAT
GAGATCATTCAGGAAGTCTGAGAAGGAAAAGTGAGTACTGAAGAAGAAATGAAGCAGGAGATGAAAGAGGATGTGGGCAC
CCACAGTGGGGCTGATGATGCTTTTTCATAATCAGGGAGATTTCGCAAAGCATTAGGAAAATCCAGCAAATACAAACAGA
AGAACTCCTCAGACTTGGGGTGCAAAGAAGGGGCAGACAAGCAGAAGTGCAACCCGGTCACTGACAAGGTCCTGATTGCC
AACAGAAATCCCTCCAGCCCCAGTGCTGCCAAGGGATGCCGCACC

Alignment

ORF - retro_mmus_1383 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.85 %
• Parental protein coverage: 99.02 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EAEVGGTGAPGDKGPGEAAPSPAEETVVWSPEVEVCLFHAMLGHKPVGVNRHFHMICIRDKFSQNIGRQV
          EAE.G.TG.PGDK..G....SPA.E.VVWSPEVEVCLFHAM.GHK...VN.HFHM.CI.DKF.QNIG.QV
Retrocopy EAEMGSTGTPGDKSQGKSSLSPA*EMVVWSPEVEVCLFHAMRGHKAIEVNQHFHMFCIQDKFNQNIGCQV

Parental  PSKVIWDHLSTMYDMQALHESEILPFPNPERNFVL-PDEIIQEVREGKVVIEEEMKEEMKEDVDPHSGAD
          PS.VIWDHLST.YDMQALHESEIL.FPNPERNF.L.PDEIIQEV.EGKV..EEEMK.EMKEDV..HSGAD
Retrocopy PSTVIWDHLSTTYDMQALHESEILSFPNPERNFIL<PDEIIQEV*EGKVSTEEEMKQEMKEDVGTHSGAD

Parental  DVFSSSGSLGKALEKSSKDKEKNSSDLGCKEGADKRKRSRVTDKVLTANSNPSSPSAAKRRRT
          D.FS.SG...KAL.KSSK.K.KNSSDLGCKEGADK.K...VTDKVL.AN.NPSSPSAAK..RT
Retrocopy DAFS*SGRFRKALGKSSKYKQKNSSDLGCKEGADKQKCNPVTDKVLIANRNPSSPSAAKGCRT

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	17.24 RPM
SRP007412_cerebellum	0.00 RPM	24.40 RPM
SRP007412_heart	0.00 RPM	12.39 RPM
SRP007412_kidney	0.00 RPM	11.32 RPM
SRP007412_liver	0.00 RPM	7.26 RPM
SRP007412_testis	0.00 RPM	56.12 RPM

ChIP-Seq

RNA Polymerase II actvity near the 5' end of retro_mmus_1383 was not detected

EST

No EST(s) were mapped for retro_mmus_1383 retrocopy.

TSS

No TSS is located nearby retro_mmus_1383 retrocopy 5' end.

Lab

retro_mmus_1383 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmus_1383 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000020272	1 retrocopy	retro_cpor_1438,
Monodelphis domestica	ENSMODG00000016803	1 retrocopy	retro_mdom_246,
Mus musculus	ENSMUSG00000027569	1 retrocopy	retro_mmus_1383 ,
Sarcophilus harrisii	ENSSHAG00000010685	1 retrocopy	retro_shar_128,
Ictidomys tridecemlineatus	ENSSTOG00000012953	1 retrocopy	retro_itri_634,