RetrogeneDB ID: retro_ogar_438

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873521.1:8700073..8701768(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BRD7
• Ensembl ID: ENSOGAG00000011289
• Aliases: None
• Description: bromodomain containing 7 [Source:HGNC Symbol;Acc:14310]

Sequence

>retro_ogar_438
AGAATAAAGGAGGATAAAAAGAAGCCAGATGGAGATCGCATGGAGAATGAGGCAGAAAAAGACCTCCACGGTCACATCCC
TGGAAGACCGTATTTGCCTCCTGAGAAGCCTCTCACAAGCTCTTTAGCCAAACAAGAAGTAGAACAGACATCCCTTCAAG
AGGCTTTGAATCAACTGATGAGACAAGTGCAGAGAAAAGACCCAAGTGCTTTCTTTTGGTTTCCTGTGCCTGATTTTATT
GCTTCTGGCTACTCCATGATCATTAAACACCCAGTGGATTTTAGTAGATGAAGGAAAATATCAAGACCAACGACTACCAG
TCCATAGAAGAACTGAAGGATAACTTCAAACGAATGTGTGCTAACGCAATGATTTACAACAAACCAGAGACTATTTATTA
AAAAGCCGCCAAGAAGCTCTTGCACTCAGGGATGAAAATTCTTATCCAGGAAAGAATTCAAAGCCTGAAACAGAGCATAG
ATTTCATGGCAGATTTGCAAAAAACTCGAAGGCAGAAAGATTGATTAGATACCTTGCAGAGTGGGGAGGATGGCGGCTGC
TGGCCTAGGGAGAGGGAAGACTCTGGAGATGCCTAAGCACAAGCTTTCAAAAAGTCCCAATAAGGAAAATAAAAAGAAAG
ACAAAGATATGCTTGAAGATAAGTTTAGAAGCAGTCATTTAGAAAGAGAGCAGGAGCGTTTTGACCGCATGGTGAGGAGT
CTGGAGAGAAACTGACCCCGCGGCTCCTCAACAGTCAGTGTGAATTTGAGAGAAGGAAACCAGATGGAACAACAATGTTG
GGACGTCTCCACCCCGTGGATTCCATGGTGGGAGAACCAGGATACTGCCCTGTGAGACTGGGAATGACAACTGGAAGACT
TCAGTCTGGTGTGAACACTTTGCAGGGCTTCAGAGAGGATAAAAGGAACAAAGTAACTCCAGTGTTATACTTGAATTATG
GACCCTACAGTTCATATGCACCACATTATGACTTGACATTTGCAGATATCAGCAAGAATGATTCTGATTTAATCTATTCA
ACTTATGGGGAAGACTCTGGTCTTTAAAGAGATTTCAGCATCCATGAGTTTTAGCCACATGCCAAGATCATCAGTAGGTC
ATGGCAGATAGTTTGCTGGATGTCTTAACCAAAAGAGGGCATTCTAGAACACTGCAAGAGTTGGAGACGTTATTTCCTGA
AGAAGAAGGTCATGCTAGGACCTTAACACAGCAAAGGAAATGGAGATTACAGAAATAGAGTCAGCCAGACGTCTGGACTC
CAGTACTCAGGACAGGCTCACATCAGTCAAAGCAGTGACAAGCTTTGTGCTCCAGTCGAAGTCTTTGACTCCGAAGAAGC
TGAACAGTTCCAGAAGAAACTTGATGAGACCACCAAATTGCTCAGGGAGCTCTAGGAAGCCCAGAATGAGCGTTTGAGCA
CCAGACCCCTCCCAATATGATCTGTCTCTTGGGTCCCTCATATAAAGACATGCATCTCGCTGAGCAAGTGACCAATAATC
TTAAAGAACTTGCACAGCAAGTAACTCCAGGTGACATGTAAGCATGTCTGGAGTTTGGAAAGCAATGGCGATTTCCATTC
CTTCCCCGGTGGTAGAAAACAACTTTGTAGATGTAACAGAAGATTTTGAAGAACCTAAAAAAGCTGATATTGCTGAGGGT
GGCCCTGATTGGATT

Alignment

ORF - retro_ogar_438 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.31 %
• Parental protein coverage: 87.27 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 8

Retrocopy - Parental Gene Alignment:

Parental  RIKEDKKKRDRDRLENEAEKDLQCHIPVRLDLPPEKPLTSSLAKQEEVEQTPLQEALNQLMRQLQRKDPS
          RIKEDKKK.D.DR.ENEAEKDL..HIP.R..LPPEKPLTSSLAKQE.VEQT.LQEALNQLMRQ.QRKDPS
Retrocopy RIKEDKKKPDGDRMENEAEKDLHGHIPGRPYLPPEKPLTSSLAKQE-VEQTSLQEALNQLMRQVQRKDPS

Parental  AFFSFPVTDFIAPGYSMIIKHPMDFST-MKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYKAAK
          AFF.FPV.DFIA.GYSMIIKHP.DFS..MKE.IK.NDYQSIEELKDNFK.MC.NAMIYNKPETIY.KAAK
Retrocopy AFFWFPVPDFIASGYSMIIKHPVDFSR<MKENIKTNDYQSIEELKDNFKRMCANAMIYNKPETIY*KAAK

Parental  KLLHSGMKILSQERIQSLKQSIDFMADLQKTRKQKDRSDTSQSGEDGGCWPREREDSGDAEAQAFK-SPN
          KLLHSGMKIL.QERIQSLKQSIDFMADLQKTR.QKD..DT.QSGEDGGCWPREREDSGDA.AQAFK.SPN
Retrocopy KLLHSGMKILIQERIQSLKQSIDFMADLQKTRRQKD*LDTLQSGEDGGCWPREREDSGDA*AQAFK>SPN

Parental  KENKRRDKDTLEDKFRSGHLEREQEQIDRVVR-ESGGKLTRRLANSQCEFERRKPDGTTTLGLLHPVDPT
          KENK..DKD.LEDKFRS.HLEREQE..DR.VR.ESG.KLT.RL.NSQCEFERRKPDGTT.LG.LHPVD..
Retrocopy KENKKKDKDMLEDKFRSSHLEREQERFDRMVR<ESGEKLTPRLLNSQCEFERRKPDGTTMLGRLHPVDSM

Parental  VGEPGYCPVRLGMTTGRLQSGVNTLQGFKEDKRNKVTPVLYLNYGPYSSYAPHYDSTFANISKDDSDLIY
          VGEPGYCPVRLGMTTGRLQSGVNTLQGF.EDKRNKVTPVLYLNYGPYSSYAPHYD.TFA.ISK.DSDLIY
Retrocopy VGEPGYCPVRLGMTTGRLQSGVNTLQGFREDKRNKVTPVLYLNYGPYSSYAPHYDLTFADISKNDSDLIY

Parental  STYGEDSDLQSDFSIHEF-LATCQDYQYVMADSLLDVLTKGGHSRTLRESETSCFPEEEGHART-LNTAK
          STYGEDS.L..DFSIHEF.LATCQD.Q.VMADSLLDVLTK.GHSRTL.E.ET..FPEEEGHART.LNTAK
Retrocopy STYGEDSGL*RDFSIHEF<LATCQDHQ*VMADSLLDVLTKRGHSRTLQELET-LFPEEEGHART<LNTAK

Parental  EMEITEIESAGRLDSSTQDRLTALKAVTSF-GAPVEVFDSEEAEVFQKKLDETTKLLRELQEAQNERLST
          EMEITEIESA.RLDSSTQDRLT..KAVTSF..APVEVFDSEEAE.FQKKLDETTKLLREL.EAQNERLST
Retrocopy EMEITEIESARRLDSSTQDRLTSVKAVTSF<CAPVEVFDSEEAEQFQKKLDETTKLLREL*EAQNERLST

Parental  RP-PPNMICLLGPSYKEMHLAEQVTNNLKELAQQVTPGDV-VSTYGVRKAMGISIPSPVVENNFVDLTED
          RP.PPNMICLLGPSYK.MHLAEQVTNNLKELAQQVTPGD..VS..GV.KAM.ISIPSPVVENNFVD.TED
Retrocopy RP<PPNMICLLGPSYKDMHLAEQVTNNLKELAQQVTPGDM<VSMSGVWKAMAISIPSPVVENNFVDVTED

Parental  SEEPKKADVAEGGPDGI
          .EEPKKAD.AEGGPD.I
Retrocopy FEEPKKADIAEGGPDWI

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_438 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 7 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000009355	1 retrocopy	retro_chof_2431,
Callithrix jacchus	ENSCJAG00000001832	1 retrocopy	retro_cjac_2372,
Homo sapiens	ENSG00000166164	2 retrocopies	retro_hsap_2723, retro_hsap_3507,
Gorilla gorilla	ENSGGOG00000014824	2 retrocopies	retro_ggor_1895, retro_ggor_2372,
Monodelphis domestica	ENSMODG00000013057	1 retrocopy	retro_mdom_152,
Otolemur garnettii	ENSOGAG00000011289	2 retrocopies	retro_ogar_326, retro_ogar_438 ,
Pan troglodytes	ENSPTRG00000008103	3 retrocopies	retro_ptro_1840, retro_ptro_2379, retro_ptro_2384,