RetrogeneDB ID: retro_ogar_2297

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873610.1:2986823..2987606(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CAB39L
• Ensembl ID: ENSOGAG00000016755
• Aliases: None
• Description: calcium binding protein 39-like [Source:HGNC Symbol;Acc:20290]

Sequence

>retro_ogar_2297
TACAGCAGCGGGCTGCTGGTGACATCAACCGCTGACCTGCAGCTGATAGACTTCGAGGGAAAAAAAGATGTGACCCAGAT
ATTTAACAACATCCTGAGAAGACAGACAGGCACTCAGAGTCCCACTGTGGAGGACATCAGCGCTCACCCCCACATCCTGT
TCATGCTCTTCAAGGGATAGGAAGCCCCACAGATTGCCTCGTGTTGTTGGATTATTCAGAGAGAATGCATTCGACATGAA
CCACTTGCCAAAATCATCCTCTTTTCTAACCAATTCAGAGATTTCTCTAAGTATGTGGAGATGTCAACATTTGATACTGC
TTTAGGTGCCTTTGCTACTTTTAAGGATTTACTAACCAGACATAAAGTGTTCGTAGCAGACTTCTTACAACAAAATTATG
ACACTATCTTTGAAGATTATGAGAAATTGCTTCAGTCTGGGAACTACGTGACTAAGAGACGATCTTTAAAGCTGCGAGGT
GAACTGATCCTCGACTGCCACAACTTTGCCATCATGACCAAGTACATCAGCAAGCCAGAGAACCTGAAGCTGATGATGAA
CCTCCTATGGGACAAGAGTCCCAATGCCCAGTTTGAAGCCTTTCACGTTTTTAATGTGTTTGTGTCCAGTCCTCACAAGA
CCCCACGTATTGTGGAAATTCTGTTAAAAAATCAGCCCAAACTCATTGAGTTTCTGAGCAGCTTCCAAAAAGAAAGGATG
GATAACAAGCAGTTCACTGACAAGAAGAACTGCTTGATTAAACAGATAAGGGACTTGAAGGAA

Alignment

ORF - retro_ogar_2297 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.82 %
• Parental protein coverage: 77.91 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  YSSGLLVTLIADLQLIDFEGKKDVTQIFNNILRRQIGARSPTVEYISAHPHILFMLLKGYEAPQIALRCG
          YSSGLLVT..ADLQLIDFEGKKDVTQIFNNILRRQ.G..SPTVE.ISAHPHILFML.KG.EAPQIA..C.
Retrocopy YSSGLLVTSTADLQLIDFEGKKDVTQIFNNILRRQTGTQSPTVEDISAHPHILFMLFKG*EAPQIASCCW

Parental  IMLRECIRHEPLAKIILFSNQFRDFFKYVEMSTFDIASDAFATFKDLLTRHKVLVADFLEQNYDAIFEDY
          I..RECIRHEPLAKIILFSNQFRDF.KYVEMSTFD.A..AFATFKDLLTRHKV.VADFL.QNYD.IFEDY
Retrocopy IIQRECIRHEPLAKIILFSNQFRDFSKYVEMSTFDTALGAFATFKDLLTRHKVFVADFLQQNYDTIFEDY

Parental  EKLLQSENYVTKRQSLKLLGELILDRHNFAVMTKYISKPENLKLMMNLLRDKSPNIQFEAFHVFKVFVAS
          EKLLQS.NYVTKR.SLKL.GELILD.HNFA.MTKYISKPENLKLMMNLL.DKSPN.QFEAFHVF.VFV.S
Retrocopy EKLLQSGNYVTKRRSLKLRGELILDCHNFAIMTKYISKPENLKLMMNLLWDKSPNAQFEAFHVFNVFVSS

Parental  PHKTPPIVEILLKNQPKLIEFLSSFQKERTDDEQFADEKNYLIKQIRDLKK
          PHKTP.IVEILLKNQPKLIEFLSSFQKER.D..QF.D.KN.LIKQIRDLK.
Retrocopy PHKTPRIVEILLKNQPKLIEFLSSFQKERMDNKQFTDKKNCLIKQIRDLKE

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_2297 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000001915	1 retrocopy	retro_chof_1402,
Otolemur garnettii	ENSOGAG00000002000	1 retrocopy	retro_ogar_1455,
Otolemur garnettii	ENSOGAG00000016755	2 retrocopies	retro_ogar_2297 , retro_ogar_3157,