RetrogeneDB ID: retro_mmus_1622

Retrocopy location

• Organism: Mouse (Mus musculus)
• Coordinates: 17:17345458..17346140(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMUSG00000043801
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: Oaz1
• Ensembl ID: ENSMUSG00000035242
• Aliases: Oaz1, AZ-1, AZ1, Antizyme, ODC-Az, Oaz
• Description: ornithine decarboxylase antizyme 1 [Source:MGI Symbol;Acc:MGI:109433]

Sequence

>retro_mmus_1622
ATGGTGAAATCCTCCCTGCAGCGGATCCTCAACAGCCACTGCTTCGCCAGAGAGAAGGAAGGGGACAAACGCAGCGCCAC
GCTTCACGCCAGCCGCACCATGCCGCTTCTTAGTCAGCACAGCCCCGGCGGCTGCAGCAGCGAGAGTTCTAGGGTTGCCC
TTAATTGCTGTAGTAACCTGGGTCCGGGGCCTCGGTGGTGCTCCTGATGTCCCTCACCCACCCCTGAAGATCCCAGGTGG
GCGAGGGAACAGTCAGCGGGATCACAGTCTTTCAGCTAGCATCCTGTACTCCGACGAGCGGCTGAATGTGACAGAGGAGC
CGACGTCTAACGACAAGACCAGGGTCCTGAGCATCCAGTCCACGCTCACGGAGGCCAAGCAGGTCACCTGGAGGGCGGTG
TGGAGTGGTGGTGGCCTCTACATCGAGCTCCCAGCTGGACCTCTGCCTGAGGGCAGTAAGGACAGTTTTGCAGCTCTCCT
AGAGTTCGCAGAGGAGCAACTCCAGGCTGACCACGTTTTCATCTGCTTCCCCAAGAACCGTGAGGACAGAGCCGCCCTAC
TCCGAACCTTCAGCTTTCTTGGCTTTGAGATTGTGAGACCCGGGCATCCCCTTGTCCCCAAGAGACCCGACGCTTGCTTC
ATGGTCTACACTCTGGAGAGAGAGGACCCGGGTGAGGAGGAC

Alignment

ORF - retro_mmus_1622 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.12 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MVKSSLQRILNSHCFAREKEGDKRSATLHASRTMPLLSQHSRGGCSSESSRVALNCCSNLGPGPRWCS-D
          MVKSSLQRILNSHCFAREKEGDKRSATLHASRTMPLLSQHS.GGCSSESSRVALNCCSNLGPGPRWCS.D
Retrocopy MVKSSLQRILNSHCFAREKEGDKRSATLHASRTMPLLSQHSPGGCSSESSRVALNCCSNLGPGPRWCS>D

Parental  VPHPPLKIPGGRGNSQRDHSLSASILYSDERLNVTEEPTSNDKTRVLSIQSTLTEAKQVTWRAVWSGGGL
          VPHPPLKIPGGRGNSQRDHSLSASILYSDERLNVTEEPTSNDKTRVLSIQSTLTEAKQVTWRAVWSGGGL
Retrocopy VPHPPLKIPGGRGNSQRDHSLSASILYSDERLNVTEEPTSNDKTRVLSIQSTLTEAKQVTWRAVWSGGGL

Parental  YIELPAGPLPEGSKDSFAALLEFAEEQLQADHVFICFPKNREDRAALLRTFSFLGFEIVRPGHPLVPKRP
          YIELPAGPLPEGSKDSFAALLEFAEEQLQADHVFICFPKNREDRAALLRTFSFLGFEIVRPGHPLVPKRP
Retrocopy YIELPAGPLPEGSKDSFAALLEFAEEQLQADHVFICFPKNREDRAALLRTFSFLGFEIVRPGHPLVPKRP

Parental  DACFMVYTLEREDPGEED
          DACFMVYTLEREDPGEED
Retrocopy DACFMVYTLEREDPGEED

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	0.33 RPM	37.87 RPM
SRP007412_cerebellum	0.30 RPM	60.66 RPM
SRP007412_heart	1.31 RPM	102.32 RPM
SRP007412_kidney	0.81 RPM	73.36 RPM
SRP007412_liver	0.57 RPM	80.15 RPM
SRP007412_testis	0.18 RPM	47.20 RPM

ChIP-Seq

RNA Polymerase II activity near the 5' end of retro_mmus_1622 was not detected

EST

No EST(s) were mapped for retro_mmus_1622 retrocopy.

TSS

No TSS is located nearby retro_mmus_1622 retrocopy 5' end.

Lab

retro_mmus_1622 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmus_1622 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000016529	2 retrocopies	retro_dord_558, retro_dord_654,
Echinops telfairi	ENSETEG00000017945	2 retrocopies	retro_etel_2073, retro_etel_452,
Myotis lucifugus	ENSMLUG00000004446	2 retrocopies	retro_mluc_1524, retro_mluc_2157,
Mus musculus	ENSMUSG00000035242	1 retrocopy	retro_mmus_1622 ,
Mus musculus	ENSMUSG00000040652	2 retrocopies	retro_mmus_1343, retro_mmus_2305,
Nomascus leucogenys	ENSNLEG00000002179	1 retrocopy	retro_nleu_2435,
Pongo abelii	ENSPPYG00000009345	1 retrocopy	retro_pabe_476,