RetrogeneDB ID: retro_ogar_2468

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873625.1:1594097..1595274(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ACAD8
• Ensembl ID: ENSOGAG00000015375
• Aliases: None
• Description: acyl-CoA dehydrogenase family, member 8 [Source:HGNC Symbol;Acc:87]

Sequence

>retro_ogar_2468
CCCGCCCTGACCAGCCGCCGGAGCCTGACCTCCTGCATTGATCCTTCCATGGGACTGAATGAAGAGCAGAAAGAATTCCA
GAAAGTGGCCTTTGACTTAGCTGCTCGGGAGATGGCTCCAAATATGGCCGAGTGGGACCAGAAGGAGCTGTTCCCAGTGG
ACGTGATGTGAAAGGCGGCCCTGCTGGGCTTTGGGGGGATCTACGTGCGCACAGATGTGGGTGGGTCTGGACTGTCCCGG
CTTGATACCTCCGTCATCTTTGAAGCCTTGGCTACAGGCTGCACCAGCACCACGGCCTATATAAGCATCCACAACATGTG
TGCCTGGCTGATTGATAGCTTTGGAAATGAGGAACAGAGGCACACATTTTGCCCACCGCTCTGTACCATGGAGAAGTTTG
CTTCCTAAGGCCTCACCGAACCAGGAAGCGGGAGTGATGCTGCATTTCTTTTGACCTCGGCTAAACGACAAGGAGATCAT
TATATTCTCAATGGCTCCAAAGCCTTCATCAGTGGTGGCGGTGAGTCAGACATCTATATGGTCATGTGCCGAACAGGAGG
ACCAGGCCCCAAAGGTATCTCATGTACAGTTGTTGAGAAGGGGACTCCTGGCCTCAGTTTTGGCAAGAAGGAGAAAAAGG
TGGGGTAGAACTCCCAGCCAACTCGAGCTGTGATCTTTGAAGATTGTGCTGTCCCTGTGGCCAACAGAACTGGGAACGAG
GGTCAGGGCTTCCTCATTGCCATGAAAGGACTGAATCAAGGAGGATCAACGTTGCTTCCTGCTCCCTGGGGGCTGCTCAT
GTGTCAGTCATCCTCACCTGAGACCACCTCGATGTCCAGAAGCAGTTTGGGGAGCCCCTGGCCAGTAACCAGTACCTGCA
GTTCAAACTGGCTGATGTGCAACAAGGCTGGTGGCCTGGAGACTGATGATCCGCAATGCGGCGGTGGCTCTGCAGGAGGA
GCGGGAAGATGCAGTGGCCCTGTGCTCCGTGGCCAAGCTGTTCTCTACGGATGAATGCTTCGCTGTCTGCAACCAGGCTT
TACAGATGCATGGAGGCTACAGCTACCTGAAGGATTGTGCTGTTCAGCAGTATGTGCGGGACTCCCGGGTCCACCAAATT
CTTGAAGGAGGCAATGGAGTGATGAGGATGCTGATCTCGCGCAGCCTGCTGCAGGAG

Alignment

ORF - retro_ogar_2468 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.14 %
• Parental protein coverage: 95.16 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PALTGRRSVTSCIDPSMGLNEEQKEFQKVAFDFAAREMAPNMAEWDQKELFPVDMMRKAALLGFGGIYVR
          PALT.RRS.TSCIDPSMGLNEEQKEFQKVAFD.AAREMAPNMAEWDQKELFPVD.M.KAALLGFGGIYVR
Retrocopy PALTSRRSLTSCIDPSMGLNEEQKEFQKVAFDLAAREMAPNMAEWDQKELFPVDVM*KAALLGFGGIYVR

Parental  TDVGGSGLSLLDTSVIFEALATGCTSTTAYISIHNMCVWMIDSFGNEEQRHTFCPPLCTMEKFASYCLTE
          TDVGGSGLS.LDTSVIFEALATGCTSTTAYISIHNMC.W.IDSFGNEEQRHTFCPPLCTMEKFAS..LTE
Retrocopy TDVGGSGLSRLDTSVIFEALATGCTSTTAYISIHNMCAWLIDSFGNEEQRHTFCPPLCTMEKFAS*GLTE

Parental  PGSGSDAASLLTSAKRQGDHYILNGSKAFISGGGESDIYVVMCRTGGPGPKGISCVVVEKGTPGLSFGKK
          PGSGSDAA.LLTSAKRQGDHYILNGSKAFISGGGESDIY.VMCRTGGPGPKGISC.VVEKGTPGLSFGKK
Retrocopy PGSGSDAAFLLTSAKRQGDHYILNGSKAFISGGGESDIYMVMCRTGGPGPKGISCTVVEKGTPGLSFGKK

Parental  VKKVGWNSQPTRAVIFEDCAVPVANRIGNEGQGFLIAMKGLNGG-RINIASCSLGAAHASVILTRDHLNV
          .KKVG.NSQPTRAVIFEDCAVPVANR.GNEGQGFLIAMKGLN.G.RIN.ASCSLGAAH.SVILT.DHL.V
Retrocopy EKKVG*NSQPTRAVIFEDCAVPVANRTGNEGQGFLIAMKGLNQG<RINVASCSLGAAHVSVILT*DHLDV

Parental  RKQFGEPLASNQYLHFKLADM-ATRLVALRLMIRNAAVALQEEREDAVALCSMAKLFTTDECFAICNQAL
          .KQFGEPLASNQYL.FKLAD..ATRLVA.RLMIRNAAVALQEEREDAVALCS.AKLF.TDECFA.CNQAL
Retrocopy QKQFGEPLASNQYLQFKLADV<ATRLVAWRLMIRNAAVALQEEREDAVALCSVAKLFSTDECFAVCNQAL

Parental  QMHGGYGYLKDYAVQQYVRDSRVHQILEGSNEVMRMLISRSLMQE
          QMHGGY.YLKD.AVQQYVRDSRVHQILEG.N.VMRMLISRSL.QE
Retrocopy QMHGGYSYLKDCAVQQYVRDSRVHQILEGGNGVMRMLISRSLLQE

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_2468 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
Otolemur garnettii	ENSOGAG00000007657	1 retrocopy	retro_ogar_3007,
Otolemur garnettii	ENSOGAG00000015375	1 retrocopy	retro_ogar_2468 ,