RetrogeneDB ID: retro_mmur_1277

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_38633:2340..3181(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UGP2
• Ensembl ID: ENSMICG00000006509
• Aliases: None
• Description: UDP-glucose pyrophosphorylase 2 [Source:HGNC Symbol;Acc:12527]

Sequence

>retro_mmur_1277
CAAGATGGTGCTTCTCAGTCCCTAGAAGACATTCAACAAGAGTTGGAATTATCTGTGAAGATGGAACAAGGAAGTGGGCA
CACTAAAAATGATCTTGATGGATTTCAGAAGCGATTTCATAGATTTTTGCAAGAAAGGGGGCCTTCTGTGGATTGGGGAA
AAAACCCAGAGACCTCCAGAAAATTCTATTCAACCCTATAAAAAGATAAAGACTTGCCTGATAATACATCTTCTGTGCTG
AACAAGCTAGAGCTGGTGAAACTTAATGGTGGTCTGGGAACCAGCGTGGGCTACAAAGGCCCTAAAAATCTTATTGGTGT
GAGGAATGAGAATACCTTTTTGCATCTGAATGTTGAGCAAATAGAACATTTGAACAAAACCTATGGTACAGATGTTCCTC
TTATTTCAATGAACTCTTTCAACATGGATGGAGATACCAAAAAAAAAAAAAAAAAACTACAGAAGTACAATCATTGTGTA
AAAATCTATACTTTTAAACAGAGCAGGTAGCTAAGGATTAATAAAGAGTCCTTAATTACTGTAGCAAAGGGTGTATCTTA
CTCAGGGAAAATGCAGAAGCTTGGTACACTCCAGGCCATGGCAATATCTATGCCAGTTTCTATGAATACAACTCTGGTTC
ACTCGATACCCTTACAGAAGAAGGCAAAGGTATATTTTTGTGACTAATGTAGATACTCTGGGTGCCACAGTGGATCTTTA
TATTCTTAATCATCTAATGGACCCACCCAATGGAAAATGCTATGAATTTGTCATGGAAGTCACAAACAAAACACATGCAG
ATGTGAAGGATGAGATACTCACTCAATATGAAGACAAACTT

Alignment

ORF - retro_mmur_1277 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.97 %
• Parental protein coverage: 55.51 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  QEVIRQELELSVKKELEKILTTAPSHEFEHTKKDLDGFRKLFHRFLQEKGPSVDWGKIQRPPEDSIQPYE
          Q....Q.LE.....ELE..L.........HTK.DLDGF.K.FHRFLQE.GPSVDWGK....PE.S...Y.
Retrocopy QDGASQSLE-DIQQELE--LSVKMEQGSGHTKNDLDGFQKRFHRFLQERGPSVDWGK---NPETSRKFYS

Parental  KI-KARGLPDNISSVLNKLVVVKLNGGLGTSMGCKGPKSLIGVRNENTFLDLTVQQIEHLNKTYNTDVPL
          ...K...LPDN.SSVLNKL..VKLNGGLGTS.G.KGPK.LIGVRNENTFL.L.V.QIEHLNKTY.TDVPL
Retrocopy TL*KDKDLPDNTSSVLNKLELVKLNGGLGTSVGYKGPKNLIGVRNENTFLHLNVEQIEHLNKTYGTDVPL

Parental  VLMNSFNTDEDT---KKILQKYSHCRVKIYTFNQSRYPRINKESLLPVAKDVSYSG-ENTEAWYPPGHGD
          ..MNSFN.D.DT......LQKY.HC.VKIYTF.QSR..RINKESL..VAK.VSYSG.EN.EAWY.PGHG.
Retrocopy ISMNSFNMDGDTXXXXXXLQKYNHC-VKIYTFKQSR*LRINKESLITVAKGVSYSG<ENAEAWYTPGHGN

Parental  IYASF--YNSGLLDTLIGEGK-EYIFVSNIDNLGATVDLYILNHLMNPPNGKRCEFVMEVTNKTRADVKG
          IYASF..YNSG.LDTL..EGK..YIFV.N.D.LGATVDLYILNHLM.PPNGK..EFVMEVTNKT.ADVK.
Retrocopy IYASFYEYNSGSLDTLTEEGK<RYIFVTNVDTLGATVDLYILNHLMDPPNGKCYEFVMEVTNKTHADVKD

Parental  GTLTQYEGKL
          ..LTQYE.KL
Retrocopy EILTQYEDKL

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Microcebus murinus was not studied using RNA-Seq expression data.

ChIP-Seq

Microcebus murinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmur_1277 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1277 was not experimentally validated.

Homology

Retrocopy orthology:

Microcebus murinus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000006960	1 retrocopy	retro_cjac_1709,
Cavia porcellus	ENSCPOG00000008459	1 retrocopy	retro_cpor_811,
Microcebus murinus	ENSMICG00000006509	1 retrocopy	retro_mmur_1277 ,
Oryctolagus cuniculus	ENSOCUG00000002137	1 retrocopy	retro_ocun_815,
Tursiops truncatus	ENSTTRG00000000694	1 retrocopy	retro_ttru_56,