RetrogeneDB ID: retro_mmus_213

Retrocopy location

• Organism: Mouse (Mus musculus)
• Coordinates: 2:169582513..169583020(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMUSG00000074571
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: Gm11011
• Ensembl ID: ENSMUSG00000078912
• Aliases: None
• Description: predicted gene 11011 [Source:MGI Symbol;Acc:MGI:3779229]

Sequence

>retro_mmus_213
ATGAGTTCCCACCGACTGAAATACTACTGTAATATCAGCTGCACTTCTTACTCCTCAAAACTTGCTAACTGTAAACTAAG
TGCTTTCTACACCTTAATTCATTTTATTGGTGCAACAGGTCCATTACGACCCAGATTGTACAGAAAAGGAGAGGAGGTTT
TGGGGAGCGAATTGACACCACCAAGTTCACATATCTCTCCATCACTCTCTCCTAGTCCATGCTCTGATGTGGCTTTAAAG
GATATACATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTATGTATATATGAGATATATTGATAT
TATATATATATTATATATATATAATGTATTATTATTGCCAGTGAGAGACCATGTCTCAAAAAAGCAGAGTGGGCTGCAGA
CATCAACAGTCTCCTCAGATTTTCAGGTGTTCCTTTCCCACCCTGCATATTTACATTTTAATTATTCTCACCATCAAGGA
GAATGGCTCCCTCAGAATTATATATAA

Alignment

ORF - retro_mmus_213 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.07 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MHVCVCICVCVCVCVCIYIYI-YIHTPYTIHIYVIILLSWEGLQTRNESHTQTSTISSDFQVFPSHPTDL
          .HVCVC.CVCVCVCVC.Y.Y..YI...Y...IY...LL..........S..QTST.SSDFQVF.SHP..L
Retrocopy IHVCVCVCVCVCVCVCMYVYMRYIDIIYILYIYNVLLLPVRDHVSKKQSGLQTSTVSSDFQVFLSHPAYL

Parental  HFNYSHHQGKWLPQKYI
          HFNYSHHQG.WLPQ.YI
Retrocopy HFNYSHHQGEWLPQNYI

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	0.00 RPM
SRP007412_cerebellum	0.00 RPM	0.00 RPM
SRP007412_heart	0.00 RPM	0.00 RPM
SRP007412_kidney	0.00 RPM	0.00 RPM
SRP007412_liver	0.00 RPM	0.00 RPM
SRP007412_testis	0.00 RPM	0.05 RPM

ChIP-Seq

RNA Polymerase II actvity near the 5' end of retro_mmus_213 was not detected

EST

No EST(s) were mapped for retro_mmus_213 retrocopy.

TSS

No TSS is located nearby retro_mmus_213 retrocopy 5' end.

Lab

retro_mmus_213 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmus_213 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
Mus musculus	ENSMUSG00000078912	1 retrocopy	retro_mmus_213 ,