RetrogeneDB ID: retro_mmus_983

Retrocopy location

• Organism: Mouse (Mus musculus)
• Coordinates: 12:113629982..113630867(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: Ankrd12
• Ensembl ID: ENSMUSG00000034647
• Aliases: Ankrd12, 2900001A12Rik, AI447928, ANCO-2, AV347965, GAC-1, mKIAA0874
• Description: ankyrin repeat domain 12 [Source:MGI Symbol;Acc:MGI:1914357]

Sequence

>retro_mmus_983
ATGCCCAAATCTGGGTTCACAAAACCAGTTCAGAGTGAAAATTCTGACAGTGACAGCAGTATGGTGGAGAGGCCATATGG
AAGAAAGAGTAAAGACAAGATTGCATCTTACAGCAAAACTTCAAAAATTGACCGAGGTGATATGGGCAAGGAAATGAGAG
AGAAACCATCCATGAAACGAAAGCTGCCTTTTACAGTCAGCCCATCGAGAAATGAGGAGCGGGACTCAGACACAGAAAAA
GAAGGTCCAGAGAAGAAGAAAACAAAAAAAGAAGCTGGAACTAAGAAGTCCACCCCAGTTAGCATTCTTTTTGGTTATCC
ACTCTCTGAACGAAAGCAGATGGCACTCCTAATGCAGATGACAGCAAGGGACAACAGCCCAGATTCCACACCAAGTCATC
CGTCACAGGCAACGCCAGCCCAGAAGAAAACGCCCAGCTCTTCATCTCGACAGAAAGATAAAATTAATAAAAGAAATGAG
CGTGGCGAAACTCCTTTACACATGGCCGCTATTCGAGGAGACGTGAAGCAAGTCAAAGAGTTAATTAGTTTAGGGGCAAA
CGTCAATGTGAAGGACTTTGCAGGTTGGACCCCTTTGCATGAAGCTTGCAATGTTGGCTATTACGATGTTGCTAAGATAC
TGATAGCAGCTGGCGCAGACGTTAACACACAAGGACTGGATGATGACACCCCACTCCATGACTCTGCCAGCAGTGGCCAT
AGAGACATAGTGAAGTTGTTGCTTCGTCATGGCGGGAATCCATTCCAAGCTAATAAACATGGAGAACGGCCAGTGGATGT
GGCAGAGACAGAGGAGTTGGAGTTGCTGCTAAAAAGAGAGGTGCCTTTGTCTGGCGATGATGAAAGTTATACAGGAAAAA
GTGAA

Alignment

ORF - retro_mmus_983 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.9 %
• Parental protein coverage: 66.89 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MPKSGFTKPVQSENSDSDSSMVERPYGRKSKDKIASYSKTSKIDRGDMGKEMREKPSMKRKLPFTVSPSR
          MPKSGFTKPVQSENSDSDSSMVERPYGRKSKDKIASYSKTSKIDRGDMGKEMREKPSMKRKLPFTVSPSR
Retrocopy MPKSGFTKPVQSENSDSDSSMVERPYGRKSKDKIASYSKTSKIDRGDMGKEMREKPSMKRKLPFTVSPSR

Parental  NEERDSDTEKEGPEKKKTKKEAGTKKSTPVSILFGYPLSERKQMALLMQMTARDNSPDSTPSHPSQATPA
          NEERDSD...............GTKKSTPVSILFGYPLSERKQMALLMQMTARDNSPDSTPSHPSQATPA
Retrocopy NEERDSDXXXXXXXXXXXXXXXGTKKSTPVSILFGYPLSERKQMALLMQMTARDNSPDSTPSHPSQATPA

Parental  QKKTPSSSSRQKDKINKRNERGETPLHMAAIRGDVKQVKELISLGANVNVKDFAGWTPLHEACNVGYYDV
          QKKTPSSSSRQKDKINKRNERGETPLHMAAIRGDVKQVKELISLGANVNVKDFAGWTPLHEACNVGYYDV
Retrocopy QKKTPSSSSRQKDKINKRNERGETPLHMAAIRGDVKQVKELISLGANVNVKDFAGWTPLHEACNVGYYDV

Parental  AKILIAAGADVNTQGLDDDTPLHDSASSGHRDIVKLLLRHGGNPFQANKHGERPVDVAETEELELLLKRE
          AKILIAAGADVNTQGLDDDTPLHDSASSGHRDIVKLLLRHGGNPFQANKHGERPVDVAETEELELLLKRE
Retrocopy AKILIAAGADVNTQGLDDDTPLHDSASSGHRDIVKLLLRHGGNPFQANKHGERPVDVAETEELELLLKRE

Parental  VPLSGDDESYTDSEE
          VPLSGDDESYT...E
Retrocopy VPLSGDDESYTGKSE

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	0.05 RPM	78.83 RPM
SRP007412_cerebellum	0.56 RPM	91.62 RPM
SRP007412_heart	0.03 RPM	18.65 RPM
SRP007412_kidney	0.35 RPM	36.69 RPM
SRP007412_liver	0.00 RPM	11.14 RPM
SRP007412_testis	0.46 RPM	37.00 RPM

ChIP-Seq

RNA Polymerase II actvity near the 5' end of retro_mmus_983 was not detected

EST

No EST(s) were mapped for retro_mmus_983 retrocopy.

TSS

No TSS is located nearby retro_mmus_983 retrocopy 5' end.

Lab

retro_mmus_983 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmus_983 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	ENSMUSG00000034647	1 retrocopy	retro_mmus_983 ,