RetrogeneDB ID: retro_ogar_373

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873520.1:12919511..12920835(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UMPS
• Ensembl ID: ENSOGAG00000005426
• Aliases: None
• Description: uridine monophosphate synthetase [Source:HGNC Symbol;Acc:12563]

Sequence

>retro_ogar_373
GGGCTCTCCTCCCCCATCTACATCGATCAGCAGGGCATCCTGTCTCGACTGCATCTTCTGAGTCAGATTGCAGGTATTTT
ATTCCAAACTGCCCAAAATGAGGGAATCAGTTTTAACATGGTGTGTGAAGTACCTTATACAGCTTTGCTGTTGGCTACAT
TTATGTGTTCAACAAATCAAATTCCAATGCTGTTTAGAATGAAACAAACAAAAGATTATGGTACTAAGAGTCTTGTAGAA
AGAGCTGTAAATCTAGGAGAAATCTGTTTAATCATTGAGGATGTCGTCACCAGTAGATCTAGTGTTTTGGAAACTGTTGA
GGTTCTTCAGAAGGAGGGCTTGAAGGTCACTAATGCTGTCGTGCTGTTGGACAGAGAGCGAGGGAGGACAAGTTGCAGGC
GCACGGGATCCGTCTCCACTCAGTGAGTACATTGTCCAAAATGCTGGAAATTCTTGAGCAGCAGGAAAAAAATGATACTG
AGATGGTTGGAAGAGTTAAGAGATTTGTTCAGAAAAATGTTTTTGTGGCAGCTAATCAAAATAGGTCTCTCCTTTGTATA
AAGAAAGCATCCAAAGAACTCAGCTTTGGTGCGGGGCAGAGCTGCCTAGGATCCACCCAGTTGCATCAAAGCTTCTCAGG
CTTATGCAAAAGAAGGAGACCAATCTGTGTTTGCCTGCTGATGTTTCAGAGGCCAGAGAATTGTTGCAGCTAGCAGATGC
GTTAGGACCCAGCATCTTCCTGCTCAAGACTCATGTAGATATTTTGGATGATTTTTCCCTGGGTGTGATGGAGGAATTGA
CAATGCTGGCACAATGCCATTAGTTCTTAATATTCGAAGACTGGAAATTTGCAGATATAGGCAACACAGTAAAAAAGCAG
TATGAAGGTGGTATTTTAAAATAGCTTCTTCCGGGGCAGATGTAGTGAATGCGCATGTGGTACGTGGCCCCGGAATTGTG
AAGGGCCTATGGGTAGTAGGCCTGCCCTTGCATCGCGGTGCCTGCTCATTACAGAAATGAGCTCTGCTGGCTCCCTGGCC
ACTGGCAAATACACTAAAGCAGCAGTCAGGATGGCTGAGGAGCACTCTGAATTTGTGATTGGTTTTGTTTCTGGCTCCTG
AGTAGGCATGAAACCAGAATTTCTTCACTTGATTCCAGGAGTTCAGTTAGAAGCAGGAGGGGATTCTCTTGGCCAGCAGT
ATAATAGCCCACAAGAAGTTACCAGCAAAGAGATTCTGATATCATCATTGTAGGCCAGGGCACAATCTCAGCAGCTAATT
GTCTGGAAGCAGCAGAGATCTACAGAAAGGTTGCTTGGGAAGCT

Alignment

ORF - retro_ogar_373 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.96 %
• Parental protein coverage: 92.29 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  GLSSPIYIDLRGIVSRPRLLSQIADILFQTAQNEGISFDTVCGVPYTALPLATVMCSTNQIPMLIRRKET
          GLSSPIYID..GI.SR..LLSQIA.ILFQTAQNEGISF..VC.VPYTAL.LAT.MCSTNQIPML.R.K.T
Retrocopy GLSSPIYIDQQGILSRLHLLSQIAGILFQTAQNEGISFNMVCEVPYTALLLATFMCSTNQIPMLFRMKQT

Parental  KDYGTKRLVEGAVNPGETCLIIEDVVTSGSSVLETVEVLQKEGLKVTDAVVLLDREQGGK-DKLQAHGIR
          KDYGTK.LVE.AVN.GE.CLIIEDVVTS.SSVLETVEVLQKEGLKVT.A.V.L.....G..DKLQAHGIR
Retrocopy KDYGTKSLVERAVNLGEICLIIEDVVTSRSSVLETVEVLQKEGLKVTNA-VVLLDRERGR<DKLQAHGIR

Parental  LHSVCTLSRILEILEQQKKIDTEMVGRVKRFVQENVFVTTNQNGSLLCIKKASKELSFGAR-AELPGIHP
          LHSV.TLS..LEILEQQ.K.DTEMVGRVKRFVQ.NVFV..NQN.SLLCIKKASKELSFGA..AELP.IHP
Retrocopy LHSVSTLSKMLEILEQQEKNDTEMVGRVKRFVQKNVFVAANQNRSLLCIKKASKELSFGAG<AELPRIHP

Parental  VASKLLRLMQRKETNLCLSADVSEARELLQLADALGPSICMLKTHVDILDDFTLDVMEELTMLAQRHEFL
          VASKLLRLMQ.KETNLCL.ADVSEARELLQLADALGPSI..LKTHVDILDDF.L.VMEELTMLAQ.H.FL
Retrocopy VASKLLRLMQKKETNLCLPADVSEARELLQLADALGPSIFLLKTHVDILDDFSLGVMEELTMLAQCH*FL

Parental  IFEDRKFADIGNTVKKQYEGGI-FKIA-SWADVVNAHVVPGSGVVKGLREVGLPLHRG-CLLIAEMSSAG
          IFED.KFADIGNTVKKQYEGGI.FKIA.S.ADVVNAHVV.G.G.VKGL..VGLPLHRG.CLLI.EMSSAG
Retrocopy IFEDWKFADIGNTVKKQYEGGI<FKIASSGADVVNAHVVRGPGIVKGLWVVGLPLHRG<CLLITEMSSAG

Parental  SLATGNYTKAAVRMAEEHSEFVIGFISGSRVSMKPEFLHLTPGVQLEAGGDTLGQQYNSPQEVISK-RGS
          SLATG.YTKAAVRMAEEHSEFVIGF.SGS.V.MKPEFLHL.PGVQLEAGGD.LGQQYNSPQEV.SK.R.S
Retrocopy SLATGKYTKAAVRMAEEHSEFVIGFVSGS*VGMKPEFLHLIPGVQLEAGGDSLGQQYNSPQEVTSK<RDS

Parental  DIIIVGRGIISAANRLEAAEIYRKVAWEA
          DIIIVG.G.ISAAN.LEAAEIYRKVAWEA
Retrocopy DIIIVGQGTISAANCLEAAEIYRKVAWEA

Legend:

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

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_373 was not experimentally validated.

Homology

Retrocopy orthology:

Otolemur garnettii 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Mustela putorius furo	ENSMPUG00000004294	1 retrocopy	retro_mputfur_756,
Otolemur garnettii	ENSOGAG00000005426	1 retrocopy	retro_ogar_373 ,