RetrogeneDB ID: retro_mmus_3095

Retrocopy location

• Organism: Mouse (Mus musculus)
• Coordinates: 7:140385767..140386333(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: Spryd7
• Ensembl ID: ENSMUSG00000021930
• Aliases: Spryd7, 6330409N04Rik, Clld6
• Description: SPRY domain containing 7 [Source:MGI Symbol;Acc:MGI:1913924]

Sequence

>retro_mmus_3095
GCGTGGTGTTGCCTGCGCTGCTGCAGGGACGGTGCGACTGGCCACATTCCTCTCAAGGAGATGCCAGCCTTACCGGTGGA
CAAGTGGCACATGGGAACAGATGTTGTCATCGTGAAAAACGGAAGAAGAATCTGTGGCACCAGAGGTTGTTTAGCCAGGG
CACCTTTACATCAGAACAAAAGCTACTTTGAGTTCAAACTCCAGTCTACTGGAATCTGGGGTATAGGTGTTGCAACTCAG
AAAGTTAACTTGAACCAGGTTCCTCTTGGCCGCACATGCATAGCCTGGTGATGAGAAATGACGGAGCCCTGTACCACAAC
AACGAAGAGAAAAGCAGGCTGCCAGAAAACAGCCTTCCTCAGGAGGGTGATGTAGCGGGTATAACATATGACCATGTAGA
ATTAAATGTATATTTGAATGGGAAAAACATGCATCGTCCGGCATCAGGTATACGAGGGACAGTGTATCCAGTTGTATATG
TTGACGACAGTGCAATACTGTCAGTCAGTGAATTTTATCATACACCACCTGGTTTTGAAATAATACTATTTGAGCAGCAG
ATCTTC

Alignment

ORF - retro_mmus_3095 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.6 %
• Parental protein coverage: 97.96 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AWCCLRCCRDGGTGHIPLKEMPAVQLDTQHMGTDVVIVKNGRRICGTGGCLASAPLHQNKSYFEFKIQST
          AWCCLRCCRDG.TGHIPLKEMPA...D..HMGTDVVIVKNGRRICGT.GCLA.APLHQNKSYFEFK.QST
Retrocopy AWCCLRCCRDGATGHIPLKEMPALPVDKWHMGTDVVIVKNGRRICGTRGCLARAPLHQNKSYFEFKLQST

Parental  GIWGIGVATQKVNLNQIPLGR-DMHSLVMRNDGALYHNNEEKNRLPANSLPQEGDVVGITYDHVELNVYL
          GIWGIGVATQKVNLNQ.PLGR..MHSLVMRNDGALYHNNEEK.RLP.NSLPQEGDV.GITYDHVELNVYL
Retrocopy GIWGIGVATQKVNLNQVPLGR<HMHSLVMRNDGALYHNNEEKSRLPENSLPQEGDVAGITYDHVELNVYL

Parental  NGKNMHCPASGIRGTVYPVVYVDDSAILDCQFSEFYHTPPPGFEKILFEQQIF
          NGKNMH.PASGIRGTVYPVVYVDDSAIL....SEFYHT.PPGFE.ILFEQQIF
Retrocopy NGKNMHRPASGIRGTVYPVVYVDDSAIL--SVSEFYHT-PPGFEIILFEQQIF

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	38.88 RPM
SRP007412_cerebellum	0.00 RPM	26.23 RPM
SRP007412_heart	0.00 RPM	27.33 RPM
SRP007412_kidney	0.00 RPM	20.02 RPM
SRP007412_liver	0.00 RPM	15.40 RPM
SRP007412_testis	0.00 RPM	21.27 RPM

ChIP-Seq

RNA Polymerase II activity near the 5' end of retro_mmus_3095 was not detected

EST

No EST(s) were mapped for retro_mmus_3095 retrocopy.

TSS

No TSS is located nearby retro_mmus_3095 retrocopy 5' end.

Lab

retro_mmus_3095 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmus_3095 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Monodelphis domestica	ENSMODG00000010799	2 retrocopies	retro_mdom_1497, retro_mdom_613,
Mus musculus	ENSMUSG00000021930	1 retrocopy	retro_mmus_3095 ,
Rattus norvegicus	ENSRNOG00000015095	1 retrocopy	retro_rnor_1652,
Tarsius syrichta	ENSTSYG00000007075	1 retrocopy	retro_tsyr_791,