RetrogeneDB ID: retro_ogar_3315

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873775.1:1276523..1277011(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SEC11A
• Ensembl ID: ENSOGAG00000007281
• Aliases: None
• Description: SEC11 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:17718]

Sequence

>retro_ogar_3315
GAGCTGCATTACCAAGTCCTAAACTTTGGAATGATTGTCTCTTCAGCACTAATGATCTGGAAGGGGTTAATGGTAATAAA
TGGAAGTGAAAGTCAAATTGTAGTGGTGCTCAGTGGCAGCATGAAACCTGCATTCCATAGAGGAGACCTTCTTTTTCTAA
CAAATTGGGTTGAAGACCCCATACAAGTGGGAGAAATTGTTGTTTTTAGGATAGGAGGAAGAGAGATTCCTATAATTCAC
TGAGTCTTGAAGATTCATGAAAAGCAAAATGGATATATCAAGTTTTTGACCAAAGGAGATAATAATGCAATTGATGACTG
AGGCCTCCATAAACAAGGACAACATGGCTGGAGAAAAAAGATGTTGTGGGGAGAACCAGGGGATTTGTTCATTATATTGG
AATTGTGACAATCCTCATGAATGACTATCCCAAATTTAAGTATGCAGTAATCTTTTTGCTGGGTTTATTTGTGTTGGTCC
ATTGTGAG

Alignment

ORF - retro_ogar_3315 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.41 %
• Parental protein coverage: 90.06 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  QLYYQVLNFGMIVSSALMIWKGLMVITGSESPIVVVLSGSMEPAFHRGDLLFLTNRVEDPIRVGEIVVFR
          .L.YQVLNFGMIVSSALMIWKGLMVI.GSES.IVVVLSGSM.PAFHRGDLLFLTN.VEDPI.VGEIVVFR
Retrocopy ELHYQVLNFGMIVSSALMIWKGLMVINGSESQIVVVLSGSMKPAFHRGDLLFLTNWVEDPIQVGEIVVFR

Parental  IEGREIPIVHRVLKIHEKQNGHIKFLTKGDNNAVDDRGLYKQGQH-WLEKKDVVGRARGFVPYIGIVTIL
          I.GREIPI.H.VLKIHEKQNG.IKFLTKGDNNA.DD.GL.KQGQH.WLEKKDVVGR.RGFV.YIGIVTIL
Retrocopy IGGREIPIIH*VLKIHEKQNGYIKFLTKGDNNAIDD*GLHKQGQH<WLEKKDVVGRTRGFVHYIGIVTIL

Parental  MNDYPKFKYAVLFLLGLFVLVHRE
          MNDYPKFKYAV.FLLGLFVLVH.E
Retrocopy MNDYPKFKYAVIFLLGLFVLVHCE

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_3315 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 8 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000015328	2 retrocopies	retro_eeur_314, retro_eeur_412,
Macaca mulatta	ENSMMUG00000011486	1 retrocopy	retro_mmul_2343,
Monodelphis domestica	ENSMODG00000019364	1 retrocopy	retro_mdom_726,
Oryctolagus cuniculus	ENSOCUG00000008205	1 retrocopy	retro_ocun_849,
Otolemur garnettii	ENSOGAG00000002570	1 retrocopy	retro_ogar_400,
Otolemur garnettii	ENSOGAG00000007281	1 retrocopy	retro_ogar_3315 ,
Ictidomys tridecemlineatus	ENSSTOG00000019948	1 retrocopy	retro_itri_206,
Tupaia belangeri	ENSTBEG00000012320	3 retrocopies	retro_tbel_1139, retro_tbel_2280, retro_tbel_745,