RetrogeneDB ID: retro_ogar_1284

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873541.1:2559464..2560412(-)
• Located in intron of: ENSOGAG00000014337

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000013335
• Aliases: None
• Description: None

Sequence

>retro_ogar_1284
ATGCCGAAACGTGGGAAAAAGGGAGCGGTGGCAGAAGATGGCCCATGACAGAGCCAGAGCCTAAGAAGAGTAAGACGGGA
GCAAAGAAAAACGAAAAAGAAGCAGCAGGAGAGGGCCCTGTCCTATATGAGGACCCCCCAGATAAGAAAACCTCACCCAG
TGGCAAATCTGCCACACTCAAGATTTGTTCTTGGAATGTGGATGGGCTTCGGGCCTGGATTAAGAAGAAAGGATTAGATT
GGGTAAAGGAAGAAGCCCCAGATATCCTGTGCCTCCAAGAGACCAAACGTTCCGAGAACAAACTACCCACTAAACTTCAA
GAGCTGCCTGGACTATCCCATCAGTACTGGTCAGCTCCTTCAGACAAGGAAAGGTACAGTGGTGTGGGCTTACTTTCCCG
CCAGTGCCCACTCAAGGTTTCTTATGGCATTGGTGAGGAAGAACAAGATCAGGAAGGATGAGTGATTGTGACTGAGTTTG
ACAAGTTTGTGCTGGTAACAGCCTATGTACCTAATGCAAGCCATGGGCTGGTGTGACTGGAGTATAGGCAGCGCTGGGAT
GAAGCCTTCCGCAAGTTCTTGAAGGGCTTGACTTCCCAAAAGCCCCTTGTGCTGTGTGGAGATCTCAATGTGGCTCATGA
AGAAATTGACCTTCGCAACCCCAAGGGAAACAAAAAAAAATGCTGGCTTCACCCCCTAAGAGCGTCAAGGCTTTGGGGAA
TTGCTGCAAGCTGTGCCACTGGCTGACAGCTTTCGGCATCTCTACCCCAACACAGCCTATGCCTACACCTTTTGGACTTA
CATGATGAATGCTTGAGCTAAGAATGTTGGTTGGCATCTTGACTACTTTTTGTTGTCCCGCTCTCTGTTACCAGCATTGT
GTGACAGCAAGATTCGTTCCAAGGCCCTGGGGAGTGATCACTGTCCCATCACCCTATATCTAGCACTG

Alignment

ORF - retro_ogar_1284 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.94 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MPKRGKKGAVAEDG-EDPKTEPEPKKSKTGAKKNEKEAAGEGPVLYEDPPDKKTSPSGKSATLKICSWNV
          MPKRGKKGAVAEDG......EP...K..TGAKKNEKEAAGEGPVLYEDPPDKKTSPSGKSATLKICSWNV
Retrocopy MPKRGKKGAVAEDG<PMTEPEPKKSK--TGAKKNEKEAAGEGPVLYEDPPDKKTSPSGKSATLKICSWNV

Parental  DGLRAWIKKKGLDWVKEEAPDILCLQETKCSENKLPTELQDLPGLSHQYWSAPSDKEGYSGVGLLSRQCP
          DGLRAWIKKKGLDWVKEEAPDILCLQETK.SENKLPT.LQ.LPGLSHQYWSAPSDKE.YSGVGLLSRQCP
Retrocopy DGLRAWIKKKGLDWVKEEAPDILCLQETKRSENKLPTKLQELPGLSHQYWSAPSDKERYSGVGLLSRQCP

Parental  LKVSYGIGEEEHDQEGRVIVAEFDKFVLVTAYVPNAGRGLVRLEYRQRWDEAFRKFLKGLTSQKPLVLCG
          LKVSYGIGEEE.DQEG.VIV.EFDKFVLVTAYVPNA..GLV.LEYRQRWDEAFRKFLKGLTSQKPLVLCG
Retrocopy LKVSYGIGEEEQDQEG*VIVTEFDKFVLVTAYVPNASHGLV*LEYRQRWDEAFRKFLKGLTSQKPLVLCG

Parental  DLNVAHEEIDLRNPKGN-KKNAGFTPQERQGFGELLQAVPLADSFRHLYPNTAYAYTFWTYMMNARAKNV
          DLNVAHEEIDLRNPKGN....AGFTP.ERQGFGELLQAVPLADSFRHLYPNTAYAYTFWTYMMNA.AKNV
Retrocopy DLNVAHEEIDLRNPKGN>XXXAGFTP*ERQGFGELLQAVPLADSFRHLYPNTAYAYTFWTYMMNA*AKNV

Parental  GWRLDYFLLSHSLLPALCDSKIRSKALGSDHCPITLYLAL
          GW.LDYFLLS.SLLPALCDSKIRSKALGSDHCPITLYLAL
Retrocopy GWHLDYFLLSRSLLPALCDSKIRSKALGSDHCPITLYLAL

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_1284 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.

---

Parental genes homology:

Parental genes homology involve 8 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000002745	1 retrocopy	retro_btau_1729,
Echinops telfairi	ENSETEG00000004855	1 retrocopy	retro_etel_1392,
Loxodonta africana	ENSLAFG00000021872	1 retrocopy	retro_lafr_948,
Mus musculus	ENSMUSG00000035960	2 retrocopies	retro_mmus_2027, retro_mmus_433,
Otolemur garnettii	ENSOGAG00000013335	3 retrocopies	retro_ogar_1284 , retro_ogar_2145, retro_ogar_3243,
Rattus norvegicus	ENSRNOG00000009663	1 retrocopy	retro_rnor_2971,
Ictidomys tridecemlineatus	ENSSTOG00000010096	1 retrocopy	retro_itri_1560,
Tupaia belangeri	ENSTBEG00000006405	1 retrocopy	retro_tbel_3409,