RetrogeneDB ID: retro_ogar_2901

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873677.1:3767623..3769441(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HSPA5
• Ensembl ID: ENSOGAG00000006786
• Aliases: None
• Description: heat shock 70kDa protein 5 (glucose-regulated protein, 78kDa) [Source:HGNC Symbol;Acc:5238]

Sequence

>retro_ogar_2901
GGACCTGTGGTTGGTATTGATCTTGGCACCACCTACTCTTGTGTGGGTGTCTTCCAGCATGGAAAAGTAGAGATAATTGC
TAATGATCAGGGAAACTGAACCACTCTAAGTTATGTTGCCTTTACTGACACCACACGATTGATTGGTGATGCTGCGAAAA
ATCAGCTTGCAATGAACCCCACAAACACAGTTTTTGATGCCAAGTGTCTGATTGGGCGCAGGTTTGATGATGCTGTTGTC
CAGTCTGATATGAAGCATTGGCCTTTCGTGGTGGTGGATGATGCAGGCAGGCCCAAGGTCCAAGTAGAATACAAAAGAGA
GACAAAAATTTTCTACCCAGAAGAGGTGTCATCCATGGTTCTGACAAAGATGAAGGAAATTGCAGAAGCCTATCTTGGAA
AGACTGTTACCAATGCTGTGGTCACAGTACCAGCTTACTTCAGTGATTCTCAGCGTCAGGCTACCAAAGATGCTGGAACT
ATTGCTGGTCTCAATGTTCTTAGGATTATAAATGAGCTAACTGCTGCTGCTATTGCTTATGGCTTAGACAAAAAGGTTGG
AGCTGAAAAAAATGTGCTGATCTTTGACCTTGGAGGTGGCACTTTTGATGTGTCAGTCCTCACTATTGAGGATGGAATCT
TTGAGGTCAAATCTACAGCTGGAGATACTCACTTGGGTGGGGAAGACTTTGACAACTGAATAGTCAACCATTTTATTGTT
GAGTTTAAGCGCAAACATAAGAAGGACATCAGTGAGAATAAAAGAGCTGTCTGTCCTCCGTACTGCTTGCGAACATGCTA
CGTGTACTCTATCTTCCAGTACCCAGGCCAGTATTGAGGTTGATTCCCTTTATGAAGGAATAGACTTCTATACCTCCATT
ACCTGTGCCTGATTTGAAGAATTGAATGCTGATATGTTCGGTGGCACCCTGGACCCTGTAGAAAAAGCCCTTCAAGATAC
CAAACTAGACAAGTCACAGATTCATGACATTGTCCTGGTTGGTGGTTCTACCCGTATCCCCAAGATTCAAAAGCTTCTCC
AAGACTTCTTCAGTGGAAAAGAACTGAATAAAAGCATTGACCCTGATGAGGCTATTGCTTATGGTGCAGCTGTCCAGGTG
GCCATCTTATCTGGTGACAAATCCGAGAATGTTTAAGATTTGCTGCTACTGGATGTCACTCCTCTTTCTCTAGGTATTGA
GACTGCTGGTGGAGTTATGACTGTGCTCATTAAGCGCAATACTACTATTCCAACCAAGCAGACACAGACCTTCACTACCT
ACTCTGACAACCAGCCGGCTGTGCTCATCCAGGTTTATGAAGGTGAGCGTGCCATGACCAAGGATAACAACTTGCTTGGC
AAGTTGAACTCACAGGCGTACCTCCTGCTCCCCGTGGTGCTCCTCAGATTGAAGTCATTTTTGATATTGATGCCAGTGGC
ATTCTCAATGTCTCTGCTGTGGATAAGAATACAGGAAAAGAAAATAAGATTACCATCACTAACGACAAGGGACGTTTGAG
CAAGGAAGACATTGAACATATGGTCCAGGAAGCTGAGAAGTACAAGGCTGAAGATGAGAAGCAGAGGGACAAGGTTTCAT
CAAACAACTCACTTGAGTCCTATGCATTCAACATGAAAGCAACTGTTGAAGATGAGAAACTTCAAGGCAAGATCAATGAT
GAGGACAAACAGAAGATTCTTGACAAGTGTAATGAAATTATCAACTGGCTTGATAAGAACCAGACTGCAGAGAAGGAAGA
ATTTGAACATCAGCAGAAGGAGCTAGAGAAAGTCTGCAACCCCATCATTACCAAGTTG

Alignment

ORF - retro_ogar_2901 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.25 %
• Parental protein coverage: 92.67 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GTVVGIDLGTTYSCVGVFKNGRVEIIANDQGNRITPSYVAFTPEGERLIGDAAKNQLTSNPENTVFDAKR
          G.VVGIDLGTTYSCVGVF..G.VEIIANDQGN..T.SYVAFT....RLIGDAAKNQL..NP.NTVFDAK.
Retrocopy GPVVGIDLGTTYSCVGVFQHGKVEIIANDQGN*TTLSYVAFT-DTTRLIGDAAKNQLAMNPTNTVFDAKC

Parental  LIGRTWNDPSVQQDIKFLPFKVVEKKTKPYIQVDIGGGQTKTFAPEEISAMVLTKMKETAEAYLGKKVTH
          LIGR...D..VQ.D.K..PF.VV.....P..QV......TK.F.PEE.S.MVLTKMKE.AEAYLGK.VT.
Retrocopy LIGRRFDDAVVQSDMKHWPFVVVDDAGRPKVQVEYKR-ETKIFYPEEVSSMVLTKMKEIAEAYLGKTVTN

Parental  AVVTVPAYFNDAQRQATKDAGTIAGLNVMRIINEPTAAAIAYGLDKREG-EKNILVFDLGGGTFDVSLLT
          AVVTVPAYF.D.QRQATKDAGTIAGLNV.RIINE.TAAAIAYGLDK..G.EKN.L.FDLGGGTFDVS.LT
Retrocopy AVVTVPAYFSDSQRQATKDAGTIAGLNVLRIINELTAAAIAYGLDKKVGAEKNVLIFDLGGGTFDVSVLT

Parental  IDNGVFEVVATNGDTHLGGEDFDQRVMEHFIKLYKKKTGKDVRKDNRA-VQKLRREVEKAKRALSSQHQA
          I..G.FEV..T.GDTHLGGEDFD.....HFI...K.K..KD....N......LR...E.A...LSS..QA
Retrocopy IEDGIFEVKSTAGDTHLGGEDFDN*IVNHFIVEFKRKHKKDI-SENKR>LSVLRTACEHATCTLSSSTQA

Parental  RIEIESFYEGEDFSETLTRAKFEELNMDLFRSTMKPVQKVLEDSDLKKSDIDEIVLVGGSTRIPKIQQLV
          .IE..S.YEG.DF....T.A.FEELN.D.F..T..PV.K.L.D..L.KS.I..IVLVGGSTRIPKIQ.L.
Retrocopy SIEVDSLYEGIDFYTSITCA*FEELNADMFGGTLDPVEKALQDTKLDKSQIHDIVLVGGSTRIPKIQKLL

Parental  KEFFNGKEPSRGINPDEAVAYGAAVQAGVLSGDQDTG--DLVLLDVCPLTLGIETVGGVMTKLIPRNTVV
          ..FF.GKE....I.PDEA.AYGAAVQ...LSGD......DL.LLDV.PL.LGIET.GGVMT.LI.RNT..
Retrocopy QDFFSGKELNKSIDPDEAIAYGAAVQVAILSGDKSENV*DLLLLDVTPLSLGIETAGGVMTVLIKRNTTI

Parental  PTKKSQIFSTASDNQPTVTIKVYEGERPLTKDNHLLGTF-DLTGIPPAPRGVPQIEVTFEIDVNGILRVT
          PTK..Q.F.T.SDNQP.V.I.VYEGER..TKDN.LLG....LTG.PPAPRG.PQIEV.F.ID..GIL.V.
Retrocopy PTKQTQTFTTYSDNQPAVLIQVYEGERAMTKDNNLLGKL<ELTGVPPAPRGAPQIEVIFDIDASGILNVS

Parental  AEDKGTGNKNKITITNDQNRLTPEEIERMVNDAEKFAEEDKKLKERIDTRNELESYAYSLKNQIGDKEKL
          A.DK.TG..NKITITND..RL..E.IE.MV..AEK...ED.K........N.LESYA...K....D.EKL
Retrocopy AVDKNTGKENKITITNDKGRLSKEDIEHMVQEAEKYKAEDEKQRDKVSSNNSLESYAFNMKATVED-EKL

Parental  GGKLSSEDKETMEKAVEEKIEWLESHQDADIEDFKAKKKELEEIVQPIISKL
          .GK...EDK........E.I.WL...Q.A..E.F....KELE....PII.KL
Retrocopy QGKINDEDKQKILDKCNEIINWLDKNQTAEKEEFEHQQKELEKVCNPIITKL

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_2901 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 11 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000006880	1 retrocopy	retro_cjac_2221,
Homo sapiens	ENSG00000044574	1 retrocopy	retro_hsap_3005,
Gallus gallus	ENSGALG00000001000	1 retrocopy	retro_ggal_21,
Gorilla gorilla	ENSGGOG00000026879	1 retrocopy	retro_ggor_2082,
Macropus eugenii	ENSMEUG00000016702	1 retrocopy	retro_meug_522,
Mus musculus	ENSMUSG00000026864	1 retrocopy	retro_mmus_1299,
Nomascus leucogenys	ENSNLEG00000017348	1 retrocopy	retro_nleu_751,
Otolemur garnettii	ENSOGAG00000006786	1 retrocopy	retro_ogar_2901 ,
Pongo abelii	ENSPPYG00000019609	1 retrocopy	retro_pabe_2491,
Pan troglodytes	ENSPTRG00000000563	1 retrocopy	retro_ptro_2033,
Ictidomys tridecemlineatus	ENSSTOG00000011243	4 retrocopies	retro_itri_1686, retro_itri_1687, retro_itri_1689, retro_itri_1879,