RetrogeneDB ID: retro_ogar_2719

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873653.1:3345947..3346455(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000015556
• Aliases: None
• Description: None

Sequence

>retro_ogar_2719
TGCTCAGCACAATCTCTGCTGCTGTCGGTTCTTTGGATACTGGCCCTGCCACAGTGGCTTCTCGCCTTCTGTTGGTACCC
TGAGCCCTGCTGTCCATGGCTTCTGGAAGCCTCCCCCCACCCCCGCCACCATCCCAGTCCTCACCACCCTCAGGCTCTAG
CTACGTTCCAGGCTCTGTCTCCTCAGCCTTCATCACTTGCCCCAAGAAGAAGGTCGCCAAGGAGATCGCCAGGGCTGTGG
TGAAGTGCCTAGCAGCCTGCATCAACCTTATCCCTCAGGTTACATCCATTTATGAGTAGAAGGGAAAGACTGAGGAAGAC
AGTGAGGTGCTGATGATGGTTAAAATCCAGAGTTCCTTGGTCCCAGCTTTGACAGATTTTGTTTGTTCTGTGCACCCTTA
TGAAATGGCTGAGGTGATTGCCTTGCCTGTGGAACAGGGGAATTACCCACACCTGCATTGCGTGCGCCAGGTCACAGAGT
CAGTTCTGACTCCAGCATAGTCCTACCA

Alignment

ORF - retro_ogar_2719 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.08 %
• Parental protein coverage: 93.26 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  CSQAALLLSVLWMPALPP-VASRLLLVPRALLSMASGS----PPSQSSPP-SGSSYVPGSVSAAFITCPN
          CS...LLLSVLW..ALP..VASRLLLVP.ALLSMASGS....PP...S.P.SGSSYVPGSVS.AFITCP.
Retrocopy CSAQSLLLSVLWILALPQ<VASRLLLVP*ALLSMASGSLPPPPPPSQSSPPSGSSYVPGSVSSAFITCPK

Parental  EKVAKEIARAVVEKRLAACINLIPQVTSIYEWKGKIEEDSEVLMMVKTQSSLVPALTDFVRSVHPYEVAE
          .KVAKEIARAVV.K.LAACINLIPQVTSIYE.KGK.EEDSEVLMMVK.QSSLVPALTDFV.SVHPYE.AE
Retrocopy KKVAKEIARAVV-KCLAACINLIPQVTSIYE*KGKTEEDSEVLMMVKIQSSLVPALTDFVCSVHPYEMAE

Parental  VIALPVEQGNYPYLHWVRQVTESV-SDSSPVLP
          VIALPVEQGNYP.LH.VRQVTESV.SDSS.VLP
Retrocopy VIALPVEQGNYPHLHCVRQVTESV<SDSSIVLP

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_2719 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000009616	1 retrocopy	retro_dnov_2395,
Loxodonta africana	ENSLAFG00000005876	1 retrocopy	retro_lafr_938,
Otolemur garnettii	ENSOGAG00000015556	1 retrocopy	retro_ogar_2719 ,
Ictidomys tridecemlineatus	ENSSTOG00000002474	1 retrocopy	retro_itri_904,