RetrogeneDB ID: retro_ogar_1287

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873541.1:3765424..3765988(-)
• Located in intron of: ENSOGAG00000009767

Retrocopy information

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

Parental gene information

• Parental gene symbol: GHITM
• Ensembl ID: ENSOGAG00000012120
• Aliases: None
• Description: growth hormone inducible transmembrane protein [Source:HGNC Symbol;Acc:17281]

Sequence

>retro_ogar_1287
GGCTCTTGCGTGACAATTGATACAACCTTTGCTGCCATGATTGGAGCTGGAATGCTGGTACAGTCAATATTATATGACCA
AAGCCCAGGCCCAAAGCATCTTGCTTGGATGCTGCATTCTGGTGTGATGAGTGCAGTGGTGGCTCCTCTGACAATATTAG
GAGGGCCTCTTCTTATCAGAGCGGTGTGGTATATAGCTGGCATTGTGGGAAGTCTCTCCACTGTGGCCTTGTGTGTGCCT
AGTGAGGAGTTTGTGAACATGGGAGCACCCCTGGGAGTGGGCCTGGGTCTTGTCTTTGTGTCTTCACTGGGATCCATGTT
TCTTCCACCTATCACGCTGGCTGGTGCCACTCTGTATTTAGTGGCAGTGTATGGTGGATTAGTTCTTTTCAGCATGTTCT
TCCTGTATGATACCCAGAAAATAATCAAGCGGGCAGAAATAACACCAATGTATGGAGTTCAAAACTATGATCCCATCAAT
ACAATGCTGGCAGTCTATATGGATACATTAAATATATTTATGCGAGTTGCAACTATGCTAGCAACTGGAGGCAACTGAAA
GAAA

Alignment

ORF - retro_ogar_1287 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.36 %
• Parental protein coverage: 54.02 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GSWVTIGATFAAMIGAGMLVRSIPYDQSPGPKHLAWMLHSGVMGAVVAPLTILGGPLLIRAAWYTAGIVG
          GS.VTI..TFAAMIGAGMLV.SI.YDQSPGPKHLAWMLHSGVM.AVVAPLTILGGPLLIRA.WY.AGIVG
Retrocopy GSCVTIDTTFAAMIGAGMLVQSILYDQSPGPKHLAWMLHSGVMSAVVAPLTILGGPLLIRAVWYIAGIVG

Parental  GLSTVAMCAPSEKFLNMGAPLGVGLGLVFVSSLGSMFLPPTTVAGATLYSVAMYGGLVLFSMFLLYDTQK
          .LSTVA.C.PSE.F.NMGAPLGVGLGLVFVSSLGSMFLPP.T.AGATLY.VA.YGGLVLFSMF.LYDTQK
Retrocopy SLSTVALCVPSEEFVNMGAPLGVGLGLVFVSSLGSMFLPPITLAGATLYLVAVYGGLVLFSMFFLYDTQK

Parental  IIKRAEITPMYGVQNYDPINAMLAVYMDTLNIFMRVATMLATGGNRKK
          IIKRAEITPMYGVQNYDPIN.MLAVYMDTLNIFMRVATMLATGGN.KK
Retrocopy IIKRAEITPMYGVQNYDPINTMLAVYMDTLNIFMRVATMLATGGN*KK

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_1287 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 18 parental genes, and 28 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000009753	1 retrocopy	retro_amel_336,
Bos taurus	ENSBTAG00000032829	2 retrocopies	retro_btau_1689, retro_btau_779,
Choloepus hoffmanni	ENSCHOG00000001576	1 retrocopy	retro_chof_5,
Cavia porcellus	ENSCPOG00000006432	1 retrocopy	retro_cpor_1436,
Dasypus novemcinctus	ENSDNOG00000018880	5 retrocopies	retro_dnov_2426, retro_dnov_2514, retro_dnov_2524, retro_dnov_708, retro_dnov_812,
Dipodomys ordii	ENSDORG00000001109	1 retrocopy	retro_dord_184,
Echinops telfairi	ENSETEG00000001796	1 retrocopy	retro_etel_68,
Loxodonta africana	ENSLAFG00000009646	1 retrocopy	retro_lafr_388,
Macropus eugenii	ENSMEUG00000009861	3 retrocopies	retro_meug_1431, retro_meug_1806, retro_meug_798,
Microcebus murinus	ENSMICG00000011621	1 retrocopy	retro_mmur_692,
Monodelphis domestica	ENSMODG00000001693	3 retrocopies	retro_mdom_1008, retro_mdom_407, retro_mdom_886,
Oryctolagus cuniculus	ENSOCUG00000006093	1 retrocopy	retro_ocun_260,
Otolemur garnettii	ENSOGAG00000012120	1 retrocopy	retro_ogar_1287 ,
Rattus norvegicus	ENSRNOG00000013961	1 retrocopy	retro_rnor_2461,
Sus scrofa	ENSSSCG00000010345	1 retrocopy	retro_sscr_1102,
Tupaia belangeri	ENSTBEG00000016365	2 retrocopies	retro_tbel_1601, retro_tbel_2819,
Tarsius syrichta	ENSTSYG00000006367	1 retrocopy	retro_tsyr_4,
Drosophila melanogaster	FBgn0030263	1 retrocopy	retro_dmel_61,