RetrogeneDB ID: retro_ogar_1392

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873545.1:10248276..10248782(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBE2T
• Ensembl ID: ENSOGAG00000029029
• Aliases: None
• Description: ubiquitin-conjugating enzyme E2T (putative) [Source:HGNC Symbol;Acc:25009]

Sequence

>retro_ogar_1392
ATGCAGAGAGCCTCACATCCAAAGAGAGAGCTGCACATGTCAGCCACAGAGCCACCCCCAAGCATCACATACTGGCAAGA
TAAAGACCAAATGGTGATCTGTGAATTCAGATATCAAGTGGGGCCAACACACCTTATGAAAAAGGTGTTTTCAACCTGGA
AGTTATCATTCCTGAGAGGTATCCATTTGAACCTCCCCAGATCCAATTGCTCACTCCAGTTTATCATCCAAACATTGATT
CTGCTGGAAAGATTTGTCTAGATGTTCTCAAATTGCCACCAAAAAGTGCCTGGAGACCATCCCTTAACATTGCAACTGTG
CTGACCTCTATTCAGCTGCTTATGTCAGAACCCAACTCTGATGACCCACTCACGCCTGACATAGCCTCAGAATTTAAATA
TAATAAGCCAGTCTTTCTCAAGAATGCCAGGCAGAGGACAGAGAAGCATGCAAGACAGAAACAGAGGGCTGATGAAGAAG
AGATGTTTGATAAGTTACCAGAGGCA

Alignment

ORF - retro_ogar_1392 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.47 %
• Parental protein coverage: 82.04 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MQRASRLKRELHMLATEPPPGITCWQDKDQM-DDLRAQILGGANTPYEKGVFNLEVIIPERYPFEPPQIR
          MQRAS..KRELHM.ATEPPP.IT.WQDKDQM..DL..QI..GANTPYEKGVFNLEVIIPERYPFEPPQI.
Retrocopy MQRASHPKRELHMSATEPPPSITYWQDKDQM<GDL*IQISSGANTPYEKGVFNLEVIIPERYPFEPPQIQ

Parental  FLTPIYHPNIDSAGRICLDVLKLPPKGAWRPSLNIATVLTSIQLLMSEPNPDDPLMADISSEFKYNKPVF
          .LTP.YHPNIDSAG.ICLDVLKLPPK.AWRPSLNIATVLTSIQLLMSEPN.DDPL..DI.SEFKYNKPVF
Retrocopy LLTPVYHPNIDSAGKICLDVLKLPPKSAWRPSLNIATVLTSIQLLMSEPNSDDPLTPDIASEFKYNKPVF

Parental  LQNARQWTEKHARQKHRADKEEMLDNLPKA
          L................AD.EEM.D.LP.A
Retrocopy LXXXXXXXXXXXXXXXXADEEEMFDKLPEA

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_1392 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 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Oryctolagus cuniculus	ENSOCUG00000010249	3 retrocopies	retro_ocun_402, retro_ocun_403, retro_ocun_910,
Otolemur garnettii	ENSOGAG00000029029	1 retrocopy	retro_ogar_1392 ,
Otolemur garnettii	ENSOGAG00000034461	7 retrocopies	retro_ogar_1502, retro_ogar_2178, retro_ogar_406, retro_ogar_408, retro_ogar_566, retro_ogar_584, retro_ogar_732,
Tarsius syrichta	ENSTSYG00000001704	4 retrocopies	retro_tsyr_1998, retro_tsyr_208, retro_tsyr_379, retro_tsyr_991,