RetrogeneDB ID: retro_ogar_388

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873520.1:35507485..35508356(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000014868
• Aliases: None
• Description: None

Sequence

>retro_ogar_388
ATGCCCGAGCTGGTGGTGCAGAAGGTGGTGGTCCACCCCCTGGTGCTTGCTCAGTGTGGTGGATCATTTCAACTGAATAA
GCAAGGTTGGAAACCAGAAGTGTGTTGTTGGTGTGCTCTTGGGGTCATGGCAAAAGAAAGTACTTGATGTATCCAACAGT
TTTGCAGTACTTTTTGATGAAGATGACAAGGACAATTCTGTCTGGTTTTTAGACCATGATTATCTGGAAAATATGTATGG
AATGTTTAAGAAACTTAATGCCAGGGAAAGAATAGTTGGGTGATATCACACAGGCCCTAAACTACACAAGAATGACGTCG
CCACCAATGAACTCATGAAAAGATACTGCCCTAACTCAGTGTTGGTCATTATTGATGTGAAGCCAAAGGACCTGGGGCTG
CCCACAGAAGTGTATATTTCAGTGGAAGAAGTTCACAATGATGGAACTCCAACTTCAAGAACATTTGAGCACGTGATCAG
TGAAATTGGAGCAGAGGAAGCTGAGGAAGCTGGAGTGGAACACTTGTTATGAGACATCAAAGACACTACAGTGGGCAGTC
TTTCCCAACGGATCACAAACCAAGTCCACGGTTTGAAGGGACTGAACTCCAAGCTTCTGGATATCAGGAGCTACTTGGAA
AAAGTAGCCACAGGCAAGCTGCCCATCAACCACCAGATTATCTAACAGCTACAGGACGTCTTCAACCTGCTGCCAGACAT
CAGCCTGCAGGAGTTTGTCAAGGCCTTTTACCTGAAGACCAACGACCAGATGGTGGTGGTGTACTTGGCCTCACTGATCC
GTTCTGTTGTCGCCCTACACAACCTCATCAACAACAAGATTCCCAACCGGGATGCAGAGAAGGAAGGGCAG

Alignment

ORF - retro_ogar_388 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.47 %
• Parental protein coverage: 89.81 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MPELAVQKVVVHPLVL-LSVVDHFNRIGKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFDEDDKDDSVWF
          MPEL.VQKVVVHPLVL.LSVVDHFN.I.KVGNQK.VVGVLLGSWQKKVLDVSNSFAV.FDEDDKD.SVWF
Retrocopy MPELVVQKVVVHPLVL>LSVVDHFN*ISKVGNQKCVVGVLLGSWQKKVLDVSNSFAVLFDEDDKDNSVWF

Parental  LDHDYLENMYGMFKKVNARERIVGWYHTGPKLHKNDIAINELMKRYCPNSVLVIIDVKPKDLGLPTEAYI
          LDHDYLENMYGMFKK.NARERIVG.YHTGPKLHKND.A.NELMKRYCPNSVLVIIDVKPKDLGLPTE.YI
Retrocopy LDHDYLENMYGMFKKLNARERIVG*YHTGPKLHKNDVATNELMKRYCPNSVLVIIDVKPKDLGLPTEVYI

Parental  SVEEVHDDGTPTSKTFEHVTSEIGAEEAEEVGVEHLLRDIKDTTVGTLSQRITNQVHGLKGLNSKLLDIR
          SVEEVH.DGTPTS.TFEHV.SEIGAEEAEE.GVEHLL.DIKDTTVG.LSQRITNQVHGLKGLNSKLLDIR
Retrocopy SVEEVHNDGTPTSRTFEHVISEIGAEEAEEAGVEHLL*DIKDTTVGSLSQRITNQVHGLKGLNSKLLDIR

Parental  SYLEKVATGKLPINHQIIYQLQDVFNLLPDVSLQEFVKAFYLKTNDQMVVVYLASLIRSVVALHNLINNK
          SYLEKVATGKLPINHQII.QLQDVFNLLPD.SLQEFVKAFYLKTNDQMVVVYLASLIRSVVALHNLINNK
Retrocopy SYLEKVATGKLPINHQII*QLQDVFNLLPDISLQEFVKAFYLKTNDQMVVVYLASLIRSVVALHNLINNK

Parental  IANRDAEKKEGQ
          I.NRDAE.KEGQ
Retrocopy IPNRDAE-KEGQ

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_388 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 14 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000015129	2 retrocopies	retro_cjac_1520, retro_cjac_2910,
Homo sapiens	ENSG00000103035	2 retrocopies	retro_hsap_1781, retro_hsap_234,
Gorilla gorilla	ENSGGOG00000009774	1 retrocopy	retro_ggor_2235,
Myotis lucifugus	ENSMLUG00000005416	1 retrocopy	retro_mluc_505,
Macaca mulatta	ENSMMUG00000011125	4 retrocopies	retro_mmul_1242, retro_mmul_372, retro_mmul_417, retro_mmul_566,
Nomascus leucogenys	ENSNLEG00000005608	1 retrocopy	retro_nleu_1310,
Otolemur garnettii	ENSOGAG00000003220	3 retrocopies	retro_ogar_3041, retro_ogar_859, retro_ogar_863,
Otolemur garnettii	ENSOGAG00000014868	1 retrocopy	retro_ogar_388 ,
Otolemur garnettii	ENSOGAG00000016843	1 retrocopy	retro_ogar_1236,
Procavia capensis	ENSPCAG00000014356	1 retrocopy	retro_pcap_399,
Pongo abelii	ENSPPYG00000025918	1 retrocopy	retro_pabe_418,
Pan troglodytes	ENSPTRG00000008343	2 retrocopies	retro_ptro_1192, retro_ptro_205,
Ictidomys tridecemlineatus	ENSSTOG00000013123	1 retrocopy	retro_itri_1665,
Tupaia belangeri	ENSTBEG00000016950	1 retrocopy	retro_tbel_4135,