RetrogeneDB ID: retro_mmus_627

Retrocopy location

• Organism: Mouse (Mus musculus)
• Coordinates: 10:26383187..26383670(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: Akr1b8
• Ensembl ID: ENSMUSG00000029762
• Aliases: Akr1b8, FR-1, Fgfrp, Fgrp
• Description: aldo-keto reductase family 1, member B8 [Source:MGI Symbol;Acc:MGI:107673]

Sequence

>retro_mmus_627
TTCTTGGAAGTCTGGGAGGGCATGGAACAACTGGTGGACCAGGGCCTGGTGAAAGCTCTGAGCATCTCTAACTTCAACCA
CTTCCAGACTGAAAGGCTCCTGAACAAGCCTGGACTGAAACATACGCTAGTGACCAATCAGGTCAAACGTCACCCTTACC
TCCAGGAAAAACGGATCCAGTACTGTCACTCCAAGGGCATCACAGTCATGGCCTACAGTTCCCTAAGCTCCCCAGACAGG
CCTAGCATCAAGCCAGAGGACCCTTCACTATTAGAAGACCCCAAAATTAAAGAGATTGCCGCCAAGCACAAGAAAACTTC
AGCCCAAGTTCTGATTCGGTTCCACATCCAGAGGAATGTGGTGGTGGTCCCAAAGTCTGTGACGCCAGGACTTACACAGA
ATATTTAGTTCTTTGACTTCCATTTGAGTGACGAGGAGATGGCCACTATCCTTAGCTTCAACAGAAACTGGAGGGCCTGC
CTG

Alignment

ORF - retro_mmus_627 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.05 %
• Parental protein coverage: 51.58 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FLEAWEGMEELVDQGLVKALGVSNFNHFQIERLLNKPGLKHKPVTNQVECHPYLTQEKLIQYCHSKGISV
          FLE.WEGME.LVDQGLVKAL..SNFNHFQ.ERLLNKPGLKH..VTNQV..HPYL.QEK.IQYCHSKGI.V
Retrocopy FLEVWEGMEQLVDQGLVKALSISNFNHFQTERLLNKPGLKHTLVTNQVKRHPYL-QEKRIQYCHSKGITV

Parental  TAYSPLGSPDRPSAKPEDPSLLEDPKIKEIAAKHEKTSAQVLIRFHIQRNVVVIPKSVTPSRIQENIQVF
          .AYS.L.SPDRPS.KPEDPSLLEDPKIKEIAAKH.KTSAQVLIRFHIQRNVVV.PKSVTP.....NI..F
Retrocopy MAYSSLSSPDRPSIKPEDPSLLEDPKIKEIAAKHKKTSAQVLIRFHIQRNVVVVPKSVTPG-LTQNI*FF

Parental  DFQLSDEEMATILSFNRNWRACL
          DF.LSDEEMATILSFNRNWRACL
Retrocopy DFHLSDEEMATILSFNRNWRACL

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	0.47 RPM
SRP007412_cerebellum	0.00 RPM	0.30 RPM
SRP007412_heart	0.00 RPM	3.30 RPM
SRP007412_kidney	0.00 RPM	3.46 RPM
SRP007412_liver	0.00 RPM	1.86 RPM
SRP007412_testis	0.00 RPM	22.96 RPM

ChIP-Seq

RNA Polymerase II actvity near the 5' end of retro_mmus_627 was not detected

EST

No EST(s) were mapped for retro_mmus_627 retrocopy.

TSS

No TSS is located nearby retro_mmus_627 retrocopy 5' end.

Lab

retro_mmus_627 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmus_627 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

Parental genes homology involve 14 parental genes, and 26 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000166	1 retrocopy	retro_chof_400,
Callithrix jacchus	ENSCJAG00000012250	1 retrocopy	retro_cjac_3038,
Erinaceus europaeus	ENSEEUG00000004422	1 retrocopy	retro_eeur_681,
Echinops telfairi	ENSETEG00000006005	3 retrocopies	retro_etel_1055, retro_etel_1643, retro_etel_748,
Homo sapiens	ENSG00000198074	1 retrocopy	retro_hsap_581,
Macaca mulatta	ENSMMUG00000013098	2 retrocopies	retro_mmul_1357, retro_mmul_2455,
Mus musculus	ENSMUSG00000001642	10 retrocopies	retro_mmus_1252, retro_mmus_2082, retro_mmus_2678, retro_mmus_3242, retro_mmus_3488, retro_mmus_444, retro_mmus_534, retro_mmus_764, retro_mmus_784, retro_mmus_920,
Mus musculus	ENSMUSG00000029762	1 retrocopy	retro_mmus_627 ,
Mus musculus	ENSMUSG00000052131	1 retrocopy	retro_mmus_2860,
Mus musculus	ENSMUSG00000061758	1 retrocopy	retro_mmus_1490,
Nomascus leucogenys	ENSNLEG00000013088	1 retrocopy	retro_nleu_801,
Pongo abelii	ENSPPYG00000018018	1 retrocopy	retro_pabe_606,
Pan troglodytes	ENSPTRG00000019718	1 retrocopy	retro_ptro_428,
Sorex araneus	ENSSARG00000001396	1 retrocopy	retro_sara_608,