RetrogeneDB ID: retro_ogar_703

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873526.1:12048736..12049395(+)
• Located in intron of: ENSOGAG00000015478

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000028408
• Aliases: None
• Description: None

Sequence

>retro_ogar_703
ATGGCATTTGTGAAGAGTGGATGGTTGCTGCGACAGAATACTATTTTGAAACACTGGAAGAATTGGCTTGATCTGTGGTT
GGATGTTCACCTGATCTATTATGATGACCAGACCCGTCAGAGTATTGAGGACAACATTCACATGCCAGTGGACTGCATCA
ACATCTGCATGGGGCATGAATGTCAGGATATTCAGCCTCCAAAAGGGAAGTCAAAAGACTGTAAGCTGCAGATTGTTTGC
TGAGATGGGAAAACTATCAGTCTTTGTGCAGAAAGTACAGATGATTGTTTGGCGTGGAAATTTACACTCCAGGATTCTAG
GACAAACACAGTATATGTGGGTTCTACGGTCATGACTGATGAGACAGCTGTGGTTTCTTCCCCTCTTCCGTACAGGGCGT
ATGCCACACCGACACCTGAGCAGGTATATGGCTATGGTCCACATGGTGGTGCATACGCACCAAGAACTAAAGTTGTCTAT
GCTACAAATGGGCAAGCGTATGCTGTGCCCTACCAGTACCCTATGCAGGACGTTACAGACAGCAGCCTACCAACCAAGTC
ATCATCTGTGAACTGTATCATGACAACAGTGATTTGGCACTGGGCATGCTGGCTGGTACGGCCACAGGCATGGCCTTAGG
CTCTCTCTTCTGGGTCTTC

Alignment

ORF - retro_ogar_703 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.2 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAFVKSGWLLRQSTILKRWKKNWFDLWSDGHLIYYDDQTRQSIEDKVHMPVDCINIRMGHECRDIQPPEG
          MAFVKSGWLLRQ.TILK.WK.NW.DLW.D.HLIYYDDQTRQSIED..HMPVDCINI.MGHEC.DIQPP.G
Retrocopy MAFVKSGWLLRQNTILKHWK-NWLDLWLDVHLIYYDDQTRQSIEDNIHMPVDCINICMGHECQDIQPPKG

Parental  KSKDYMLQIVCRDGKTISLCAESTDDCLAWKFTLQDSRTNTAYVGSAVMTDETAVVSSPPPYTAYATPTP
          KSKD..LQIVC.DGKTISLCAESTDDCLAWKFTLQDSRTNT.YVGS.VMTDETAVVSSP.PY.AYATPTP
Retrocopy KSKDCKLQIVC*DGKTISLCAESTDDCLAWKFTLQDSRTNTVYVGSTVMTDETAVVSSPLPYRAYATPTP

Parental  EQAYGYGPYGGAYPPGTQVVYAANGQAYAVPYQY-PYAGLYGQHPTNQVIIRERYRDNDSDLALGMLAGA
          EQ.YGYGP.GGAY.P.T.VVYA.NGQAYAVPYQY.PYAG.Y.Q.PTNQVII.E.Y.DN.SDLALGMLAG.
Retrocopy EQVYGYGPHGGAYAPRTKVVYATNGQAYAVPYQY<PYAGRYRQQPTNQVIICELYHDN-SDLALGMLAGT

Parental  ATGMALGSLFWVF
          ATGMALGSLFWVF
Retrocopy ATGMALGSLFWVF

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_703 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 13 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000000941	2 retrocopies	retro_btau_1134, retro_btau_1635,
Cavia porcellus	ENSCPOG00000026329	1 retrocopy	retro_cpor_985,
Equus caballus	ENSECAG00000017331	1 retrocopy	retro_ecab_1069,
Felis catus	ENSFCAG00000027063	1 retrocopy	retro_fcat_213,
Homo sapiens	ENSG00000115762	1 retrocopy	retro_hsap_1890,
Meleagris gallopavo	ENSMGAG00000001052	1 retrocopy	retro_mgal_17,
Monodelphis domestica	ENSMODG00000018634	1 retrocopy	retro_mdom_720,
Nomascus leucogenys	ENSNLEG00000010698	2 retrocopies	retro_nleu_1471, retro_nleu_2016,
Oryctolagus cuniculus	ENSOCUG00000024282	1 retrocopy	retro_ocun_654,
Otolemur garnettii	ENSOGAG00000007287	1 retrocopy	retro_ogar_920,
Otolemur garnettii	ENSOGAG00000028408	2 retrocopies	retro_ogar_2771, retro_ogar_703 ,
Pongo abelii	ENSPPYG00000012740	1 retrocopy	retro_pabe_1570,
Ictidomys tridecemlineatus	ENSSTOG00000020509	1 retrocopy	retro_itri_56,