RetrogeneDB ID: retro_ogar_2103

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873591.1:2892274..2893180(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000004012
• Aliases: None
• Description: None

Sequence

>retro_ogar_2103
ATTTCTCATGATCAAAGAAGTGGTCATCCTGACAGAGGTGATGAATCTGGTTACAAATGGACAGGAGATGATCATTCTGC
AGGCCGACAGCCTGAGTACAGCAATGTGAGAGATGATGGCTTTAGAAGAAAAGGTTTCTACTCTTCTCATTATGGGAGAG
ATTGGTCACCTCCTAAAAGGGATGATTGATTCTTCAGAGAATCACCCATAGGCCGAAAGGATTCTCCACACAGCAGATCT
GGCTCCAGTGTCAGTAGTAGAAGCTACTCTCCAGAAAGACGCAAACCATACTATTTCCATCAGTCTCAATATAGGAAGTC
CATGTGTGTTGATGTCTCCTACAAATGGCAGCATGAAAGAAAGCCAGAAACACATAAGGAGAGGCCTGTACAATCTTGGA
AAACATCAAGAGATACTTCACTCTGGAGTTCTTCAGCATTTTCATCATCAAAGGTGTTAGACAAACCTAGTAGGCTAACT
GAAAGAGAACTTGCTGGGGCTGCAAGCAAGTGGGCTGCTGAAAAGCTAAAAAAGTCAGATGAAAGTAAGTTGCCTGAGAT
TTCTGAGATGAGGCAGTATGCACAACACCATTGTGCATTGACCAGCCAGAAGAACCTGAGGCAAATGCAGCACATGGCAT
AGAGTTATTTGAAGACAGTCAACTAACCAGTCACTCTAAAGCAATAGCATCAAAACCCAAAGAGATCTAACAGGCTTACT
GACAAGATGGTGAAACTTTCGGGATGGTGGTGAAAATGCTGATTGAAAAAGATCCTTCATCAGAAAAGACTATACAGTTT
GCACTGAGGCAGAATTTACATAAAATAGGTCGGCGATGTGTTGAAGAACTCAAGCATTTCATTGCAGAGTATGATGGTAC
TTCATCCCGAGTTTGGAGAGACTTTT

Alignment

ORF - retro_ogar_2103 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.62 %
• Parental protein coverage: 96.47 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  ISRDRAPPRNHPSDESGYRWARDDHSGSRQPEYRDMRD-GFRRKGFYSSHYGRDRSPHKRDNSFFRESPV
          IS.D.........DESGY.W..DDHS..RQPEY...RD.GFRRKGFYSSHYGRD.SP.KRD..FFRESP.
Retrocopy ISHDQRSGHPDRGDESGYKWTGDDHSAGRQPEYSNVRDDGFRRKGFYSSHYGRDWSPPKRDD*FFRESPI

Parental  GRKDSPHSRSGSSVSSRSYSPERSKPYSFHQSQHRKSMRVDASYKRQHERKPETDKERPVQSLKTSRDTS
          GRKDSPHSRSGSSVSSRSYSPER.KPY.FHQSQ.RKSM.VD.SYK.QHERKPET.KERPVQS.KTSRDTS
Retrocopy GRKDSPHSRSGSSVSSRSYSPERRKPYYFHQSQYRKSMCVDVSYKWQHERKPETHKERPVQSWKTSRDTS

Parental  PSSSSAVSSSKVLDKPSRLTEKELAEAASKWAAEKLEKTDESNLPEISEY-EAGSTAPLFIDQPEESEAN
          ..SSSA.SSSKVLDKPSRLTE.ELA.AASKWAAEKL.K.DES.LPEISE..EA..T.PL.IDQPEE.EAN
Retrocopy LWSSSAFSSSKVLDKPSRLTERELAGAASKWAAEKLKKSDESKLPEISEM<EAVCTTPLCIDQPEEPEAN

Parental  AADGIELFEDSQLNSRSKAIASKTKEIEQVYRQDCETFGMVVKMLIEKDPSLEKSIQFALRQNLHEIGER
          AA.GIELFEDSQL.S.SKAIASK.KEI.Q.Y.QD.ETFGMVVKMLIEKDPS.EK.IQFALRQNLH.IG.R
Retrocopy AAHGIELFEDSQLTSHSKAIASKPKEI*QAY*QDGETFGMVVKMLIEKDPSSEKTIQFALRQNLHKIGRR

Parental  CVEELKHFIAEYDTSTQ-EFGEPF
          CVEELKHFIAEYD.....EFGE.F
Retrocopy CVEELKHFIAEYDGTSS>EFGETF

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_2103 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 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000010693	1 retrocopy	retro_chof_1231,
Callithrix jacchus	ENSCJAG00000017726	1 retrocopy	retro_cjac_1547,
Cavia porcellus	ENSCPOG00000012266	2 retrocopies	retro_cpor_744, retro_cpor_745,
Dasypus novemcinctus	ENSDNOG00000002007	1 retrocopy	retro_dnov_1790,
Equus caballus	ENSECAG00000016067	1 retrocopy	retro_ecab_209,
Mus musculus	ENSMUSG00000036167	3 retrocopies	retro_mmus_1657, retro_mmus_3561, retro_mmus_79,
Otolemur garnettii	ENSOGAG00000004012	2 retrocopies	retro_ogar_1387, retro_ogar_2103 ,
Tarsius syrichta	ENSTSYG00000010740	1 retrocopy	retro_tsyr_2044,