RetrogeneDB ID: retro_ogar_2926

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873682.1:350994..352122(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000025627
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: CTPS2
• Ensembl ID: ENSOGAG00000001255
• Aliases: None
• Description: CTP synthase 2 [Source:HGNC Symbol;Acc:2520]

Sequence

>retro_ogar_2926
AAGTACATCCTGGTCACAGGTGGAGTCATCTCTGGCATTGGTAAAGGGATCATCGCCAGCAGCATTGGGACAATTCTGAA
GTCATGTGGACTCCAGGTTACCGCCATCAAAATCAACCCTTATATTAACATCGATGCAGGCACTTTTTCACCTTATGAAC
ATCGTGAAGTGTTAGTCTTAAATGATGGTGGAGAAGTTGATGTAGACCTTGGAAATTATGAAAGATTTTTGGATATTAAC
CTTTATAAAGACAACAACATCACTACTGGGAAGATATATCAGCATGTGATCAATAAAGAGAGGCGTGGTGATTTCATGGG
GAATACAGTGCAAGTTGTCCCTCACATTACTGATGTGATCCAGAGTGGGTCATGAATCAAGCCAAGGTGCCTGTGGAGGC
TATCAGGAACAGCCTCAAATATGTGTTATTGAGTTGGGAGGTACCAATGGAGATATTGAAGGAATGGCATTTGCGGAAGC
ATTCAGACAATTCCAGTTTAAGGTGAAAAGAGAGAATTTTTGTAATATCCATGTAAGCCTTGTCCCACAGCCTAGTTCTA
CTTGGGAGCAGAAAACCAAACCCACACACAAAACAGTGTCTGCGCGCTGAGGGGGTTAGGTCTGTCTCCGGATCTGATTA
TCTGCCGAAGCGCAATGCCTGTTGAGATGGCTGTGAAGGAGAAGATTTCTATGTTTTGTCATGTGAACCCTGAACAGGTC
ATATGTACCCAAAATGTTTATTCCACATACCAAGTGCCTGTGCTGCTGGAGGAACAAGGTGTTGTTAAATATTTTAAGGA
GAGACTGCACCTGCCAACTGGTGATTTTCCAAGTAATTTGCTTTACAAGTGGAAAAATATGGCTGACAGATATGAAAAGT
TACAGAAGACATGATCCATAGCTCTAGTTGACAAATATACCAAGCTCCCGGACTGCTATGCTTCCGCGTTCAAAGCCCTG
GAGCATTCAGCCTTGGCCATCAACTACAAGTTGAATCTGATGTACATAGACTCCATTGATCTGGAGCCAATCACTGAATC
TGAGAACTCTGTGAAATTCCACGAAGCTTGGCAGAAGCTATGCAAAACTGATGGTGTTCTTGTGCCCGGAGGCTTTGGAA
TCAGAGGA

Alignment

ORF - retro_ogar_2926 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.45 %
• Parental protein coverage: 67.32 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  KYILVTGGVISGIGKGIIASSIGTILKSCGLRVTAIKIDPYINIDAGTFSPYEHGEVFVLNDGGEVDLDL
          KYILVTGGVISGIGKGIIASSIGTILKSCGL.VTAIKI.PYINIDAGTFSPYEH.EV.VLNDGGEVD.DL
Retrocopy KYILVTGGVISGIGKGIIASSIGTILKSCGLQVTAIKINPYINIDAGTFSPYEHREVLVLNDGGEVDVDL

Parental  GNYERFLDINLYKDNNITTGKIYQHVINKERRGDFMGNTVQVVPHITDAIQ-EWVMNQAKVPVEASK-EQ
          GNYERFLDINLYKDNNITTGKIYQHVINKERRGDFMGNTVQVVPHITD.IQ.EWVMNQAKVPVEA...EQ
Retrocopy GNYERFLDINLYKDNNITTGKIYQHVINKERRGDFMGNTVQVVPHITDVIQ<EWVMNQAKVPVEAIR<EQ

Parental  PQVCVIELGGTIGDIEGMAFVEAFRQFQFKAKRENFCNIHVSLVPQPSSTGEQ-KTKP-TQNSVRALRGL
          PQ.CVIELGGT.GDIEGMAF.EAFRQFQFK.KRENFCNIHVSLVPQPSST.EQ.K..P.TQNSV.ALRGL
Retrocopy PQICVIELGGTNGDIEGMAFAEAFRQFQFKVKRENFCNIHVSLVPQPSSTWEQ>KPNP>TQNSVCALRGL

Parental  GLSPDLIICRSSMPVEMAVKEKISMFCHVNPEQVICIQDVYSTYQVPVLLEEQGVVKYFQERLHLPTGDS
          GLSPDLIICRS.MPVEMAVKEKISMFCHVNPEQVIC.Q.VYSTYQVPVLLEEQGVVKYF.ERLHLPTGD.
Retrocopy GLSPDLIICRSAMPVEMAVKEKISMFCHVNPEQVICTQNVYSTYQVPVLLEEQGVVKYFKERLHLPTGDF

Parental  ASNLLYKWKNMAERYEKLQKTCSIALVGKYTKLLDCYASVFKALEHSALAINHKLNLMYIDSIDLEPITE
          .SNLLYKWKNMA.RYEKLQKT.SIALV.KYTKL.DCYAS.FKALEHSALAIN.KLNLMYIDSIDLEPITE
Retrocopy PSNLLYKWKNMADRYEKLQKT*SIALVDKYTKLPDCYASAFKALEHSALAINYKLNLMYIDSIDLEPITE

Parental  SEDPVKFHEAWQKLCKGPGWGFEPATLGVRG
          SE..VKFHEAWQKLCK..G....P...G.RG
Retrocopy SENSVKFHEAWQKLCKTDG-VLVPGGFGIRG

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_2926 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000006158	1 retrocopy	retro_mluc_2569,
Otolemur garnettii	ENSOGAG00000001255	1 retrocopy	retro_ogar_2926 ,
Otolemur garnettii	ENSOGAG00000015398	1 retrocopy	retro_ogar_1936,
Tarsius syrichta	ENSTSYG00000013561	1 retrocopy	retro_tsyr_1368,