RetrogeneDB ID: retro_ogar_1556

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873551.1:14528353..14529046(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000029460
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: HSF2BP
• Ensembl ID: ENSOGAG00000009866
• Aliases: None
• Description: heat shock transcription factor 2 binding protein [Source:HGNC Symbol;Acc:5226]

Sequence

>retro_ogar_1556
ATGGGCGAGGCCGGTGGCGCGGAGGACGACTGCCGGCCCATGGGAACTAAAGAAGAATTTGTTAAAGTCAGAAAGAAGGA
CCTGGAACGGCTGACAACTGAAGTGATACAAATTCGGGACTTCTTACCGAGAATACTAAATGGGGAAGTTCTGGAAAGCT
TCCAGAAATTAAAGATTGTAGAAAAAAACCTGGAAAGGAAAGAGCAAGAATTAGAGCATCTGAAAATGGATTGTGAACAC
TTTAAATCCCGTCTGGAAACCGTGCAGGCTGACAGCATGAGAGAGAAGAAGGAGAAACTCATTCTTAGACAGCAGCTGAA
TGAAGCGAAGCAGCAACTCCTACAGCAGGCAGAGTATTGTACAGAAATGGGAGCAGCAGCGTGTACCCTCTTGTGGGGTG
TCTCCAGCAGCGAGGAAGTTGTCAAAGCCATTTTGGAAGGAGATAAAGCTTTGAAGTTTTTCAACATCACTGGTCAGACA
ATGGAGAGTTTTGTGAAGTCACTGGATGGTGATGTTAAGGAGCTCAACTCAGATGAAAATCAGTTTGTTTTTGCTTTGGC
TGGAATTGTAACAAATGTTGCTGCCATTGCATGTGGTCGTGAATTCCTGGTTAACTCCAGTCGAGTGCTCTTGGATACCA
TATTGCAGCTCTTGGGAGACTTGAAGCCAGGACAGTGCACCAAACTCAAAGTG

Alignment

ORF - retro_ogar_1556 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.57 %
• Parental protein coverage: 69.16 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGEAGGAEDDCRPMGTKEEFVKVRKKDLERLTTEVMQIRDFLPRILNGEVLESFQKLKIVEKNLERKEQE
          MGEAGGAEDDCRPMGTKEEFVKVRKKDLERLTTEV.QIRDFLPRILNGEVLESFQKLKIVEKNLERKEQE
Retrocopy MGEAGGAEDDCRPMGTKEEFVKVRKKDLERLTTEVIQIRDFLPRILNGEVLESFQKLKIVEKNLERKEQE

Parental  LEHLKMDCEHFKSRLETVQADSMREKKEKLILRQQLNEAKQQLLQQAEYCTEMGAAACTLLWGVSSSEEV
          LEHLKMDCEHFKSRLETVQADSMREKKEKLILRQQLNEAKQQLLQQAEYCTEMGAAACTLLWGVSSSEEV
Retrocopy LEHLKMDCEHFKSRLETVQADSMREKKEKLILRQQLNEAKQQLLQQAEYCTEMGAAACTLLWGVSSSEEV

Parental  VKAILEGDKALKFFNITGQTMESFVKSLDGDVKELNSDENQFVFALAGIVTNVAAIACGREFLVNSSRVL
          VKAILEGDKALKFFNITGQTMESFVKSLDGDVKELNSDENQFVFALAGIVTNVAAIACGREFLVNSSRVL
Retrocopy VKAILEGDKALKFFNITGQTMESFVKSLDGDVKELNSDENQFVFALAGIVTNVAAIACGREFLVNSSRVL

Parental  LDTILQLLGDLKPGQCTKLKV
          LDTILQLLGDLKPGQCTKLKV
Retrocopy LDTILQLLGDLKPGQCTKLKV

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_1556 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000009866	1 retrocopy	retro_ogar_1556 ,
Sus scrofa	ENSSSCG00000022164	1 retrocopy	retro_sscr_868,
Ictidomys tridecemlineatus	ENSSTOG00000011783	1 retrocopy	retro_itri_1287,