RetrogeneDB ID: retro_ogar_1440

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873547.1:729253..730207(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000000049
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PRPS2
• Ensembl ID: ENSOGAG00000016087
• Aliases: None
• Description: phosphoribosyl pyrophosphate synthetase 2 [Source:HGNC Symbol;Acc:9465]

Sequence

>retro_ogar_1440
ATGCCAAATATCAAAATCTTCAGTGGAAGCTCCCACCAGGACTTATCCCAGAAAATTGCTGACCGCCTAGACCTGGAGCT
AGGCAAGGTGGTAACTAAAAAATTCAGCAACCAGGAGACGTGTGTGGAAATTGGCGAGAGTGTGCGTGGAGAAGATGTCT
ACATTGTTCAGAGTGGTTGTGGCGAAATCAACGATGGTCTGATGGAGCTTTTGATTATGATTAATGCCTGCAAGATTGCT
TCAGCCAGCCGGGTTACTGCAGTCATCCCATGCTTCCCTTACGCCCGGCAGGATAAGAAGGATAAGAGCCGGGCACCGAT
CTCTGCTAAGCTTGTTGCTAATATGCTGTCTATAGCAGGGGCAGATCATATCATCACCATGGACTTACATGCTTCTCAAA
TTCAGGGCTTTTTTGATATCCCAGTAGACAATTTATATGCAGAGCCAGCGGTCCTGAAGTGGATAAGGGAGTGTATCTCA
GAGTGGAGGAACTGCATTATTGTCTCCCCTGATGCTGGTGGAGCTAAGAGAGTGGTCTCCATTGCAGACCAGTTGAATGT
GGACTTTGCCTTGATTCACAAAGAGAGAAAGAAGGCCAATGAAGTGGACCGCATGGTGTTGGTGGGAGATGTGAAGGATC
GTGTGGCTATCCTTGTGGATGACATGGCGGATACTTGTGGAACAATCTGCCTTGCTGCTGACAAACTTTTCTCAGCTGGA
GCCACCAGAGTTTATGCAATTTTAACTCATGGTATCTTTTCTGGCCCAGCCATTTCTCGAATCAGCAGTGCGTACTTTGA
AGCTATAGTAGTCACCAATACCATACCTCAAGAAGATAACATGAAGCAGTGCTCCAAAATACAAGTGATTGACATCTCCA
TGATCCTTGCAGAAGCTATCAGGAGAACTCACAATGGGGAATCTGTTTCCTACCTGTTCAGTCATGTTCCTTTA

Alignment

ORF - retro_ogar_1440 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.51 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MPNIVLFSGSSHQDLSQRVADRLGLELGKVVTKKFSNQETSVEIGESVRGEDVYIIQSGCGEINDNLMEL
          MPNI..FSGSSHQDLSQ..ADRL.LELGKVVTKKFSNQET.VEIGESVRGEDVYI.QSGCGEIND.LMEL
Retrocopy MPNIKIFSGSSHQDLSQKIADRLDLELGKVVTKKFSNQETCVEIGESVRGEDVYIVQSGCGEINDGLMEL

Parental  LIMINACKIASSSRVTAVIPCFPYARQDKKDKSRAPISAKLVANMLSVAGADHIITMDLHASQIQGFFDI
          LIMINACKIAS.SRVTAVIPCFPYARQDKKDKSRAPISAKLVANMLS.AGADHIITMDLHASQIQGFFDI
Retrocopy LIMINACKIASASRVTAVIPCFPYARQDKKDKSRAPISAKLVANMLSIAGADHIITMDLHASQIQGFFDI

Parental  PVDNLYAEPAVLQWIRENIAEWRNCIIVSPDAGGAKRVTSIADRLNVEFALIHKERKKANEVDRMVLVGD
          PVDNLYAEPAVL.WIRE.I.EWRNCIIVSPDAGGAKRV.SIAD.LNV.FALIHKERKKANEVDRMVLVGD
Retrocopy PVDNLYAEPAVLKWIRECISEWRNCIIVSPDAGGAKRVVSIADQLNVDFALIHKERKKANEVDRMVLVGD

Parental  VKGRVAILVDDMADTCGTICHAADKLLSAGATKVYAILTHGIFSGPAISRINNAAFEAVVVTNTIPQEDK
          VK.RVAILVDDMADTCGTIC.AADKL.SAGAT.VYAILTHGIFSGPAISRI..A.FEA.VVTNTIPQED.
Retrocopy VKDRVAILVDDMADTCGTICLAADKLFSAGATRVYAILTHGIFSGPAISRISSAYFEAIVVTNTIPQEDN

Parental  MKHCAKIQVIDISMILAEAIRRTHNGESVSYLFSHVPL
          MK.C.KIQVIDISMILAEAIRRTHNGESVSYLFSHVPL
Retrocopy MKQCSKIQVIDISMILAEAIRRTHNGESVSYLFSHVPL

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_1440 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 13 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000011662	2 retrocopies	retro_cfam_1037, retro_cfam_1433,
Callithrix jacchus	ENSCJAG00000003885	1 retrocopy	retro_cjac_364,
Echinops telfairi	ENSETEG00000005166	2 retrocopies	retro_etel_1613, retro_etel_669,
Felis catus	ENSFCAG00000026323	1 retrocopy	retro_fcat_527,
Monodelphis domestica	ENSMODG00000017334	4 retrocopies	retro_mdom_1323, retro_mdom_1359, retro_mdom_258, retro_mdom_834,
Otolemur garnettii	ENSOGAG00000016087	1 retrocopy	retro_ogar_1440 ,
Procavia capensis	ENSPCAG00000001197	2 retrocopies	retro_pcap_219, retro_pcap_292,
Pongo abelii	ENSPPYG00000020125	1 retrocopy	retro_pabe_3431,
Pteropus vampyrus	ENSPVAG00000009452	1 retrocopy	retro_pvam_1224,
Sorex araneus	ENSSARG00000007710	1 retrocopy	retro_sara_18,
Ictidomys tridecemlineatus	ENSSTOG00000006056	1 retrocopy	retro_itri_1668,
Tupaia belangeri	ENSTBEG00000009917	1 retrocopy	retro_tbel_1245,
Tursiops truncatus	ENSTTRG00000003226	1 retrocopy	retro_ttru_1494,