RetrogeneDB ID: retro_tbel_1832

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_5852:82126..83141(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GDI1
• Ensembl ID: ENSTBEG00000012540
• Aliases: None
• Description: GDP dissociation inhibitor 1 [Source:HGNC Symbol;Acc:4226]

Sequence

>retro_tbel_1832
GGGAGCTTTGTCTGTAAGGGAGGAACAATCTATAAGGTTCCTCTCCTCTGAAGCTGAAGCCCTAGCATCTAGCTTAATGG
GACTATTTGAAAAATGTCACTTCAGGAAATTCCTAGTGTGTGTTGCCAACTTTGATGAAAAAGATTCTAGAACTTTTGAG
GGCATTGATTCTAAGAAGACTTCAATGCGAGATGTGTACAAGAAATTTGATTTGGGCTAAGACGTGATAGATTTTACTGG
TCATGCTCTTGCATTTTACTGAACTGATGACTACTTAGATCAACCATGTTGTGAAACCATTAATAGGATTAAACTTTACA
GTGAGTCCTTGGCAAGCTATGGTAAAAGCCCATGCCTTTATACACTCTATGGCCTTGGAGAACTGCCACAAGGATTTGCA
AGGCTAAGTGCTATTTATGGAGGTGCCTACACGCTCAATAAACCAATTGAAGAAATCATTGTGCAGAATGGAAAAGTTAT
TGGTGTACAATCTGAAGGAGAGATTGCTCACTGTAAACAGCTCATTTGTGACCCCAGCTATGTCAAGGATCAGGTAGAAA
AAGTGGGCCAGGTAATCCGTGTCATCTGCATCCTCAACCACCCCATCAAGAATACCAATGATGCCAACTCCTGCCAGATT
ACCATTCCACAGAACCAAGTCAGTCGAAAGTCGGATGTCTACGTTTGCATGATCTCCTTTGCACACAATGTGGCAGCACA
AGGGAAGTCCATTGCCATAGTCGGTATAACTGTGGAAACCAAGGAACCTGAGAAGGAAATTAGACCAGCTTTGGAGCTCT
TGGGACCAATTGAACAGAAATTTGTTAGCATCAGTGACCTCCTTGTACCCAAAGATTTGGGGACAGAAAGCCAGATCTTT
ATTTCTCGCACATATGATGCTACAACTCATTTTGAGACAACCTATGATGACATTAAAGACATCTACAAGAGGATGACAGG
ATCAGAGTCTGACTTTGAGGAAATGAAGCACAAGAAAAGTGACATCTATGGGGAA

Alignment

ORF - retro_tbel_1832 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.81 %
• Parental protein coverage: 78.24 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GSFVYKGGKIYKVP-STETEALASNLMGMFEKRRFRKFLVFVANFDENDPKTFEGVDPQTTSMRDVYRKF
          GSFV.KGG.IYKVP.S.E.EALAS.LMG.FEK..FRKFLV.VANFDE.D..TFEG.D...TSMRDVY.KF
Retrocopy GSFVCKGGTIYKVP>SSEAEALASSLMGLFEKCHFRKFLVCVANFDEKDSRTFEGIDSKKTSMRDVYKKF

Parental  DLGQDVIDFTGHALALYRXXXYLDQPCLETINRIKLYSESLARYGKSPYLYPLYGLGELPQGFARLSAIY
          DLG.DVIDFTGHALA.Y....YLDQPC.ETINRIKLYSESLA.YGKSP.LY.LYGLGELPQGFARLSAIY
Retrocopy DLG*DVIDFTGHALAFY*TDDYLDQPCCETINRIKLYSESLASYGKSPCLYTLYGLGELPQGFARLSAIY

Parental  GGTYMLNKPVDDIIMENGKVVGVKSEGEVARCKQLICDPSYIPDRVRKAGQVVRIICILSHPIKNTNEAN
          GG.Y.LNKP...II..NGKV.GV.SEGE.A.CKQLICDPSY..D.V.K.GQV.R.ICIL.HPIKNTN.AN
Retrocopy GGAYTLNKPIEEIIVQNGKVIGVQSEGEIAHCKQLICDPSYVKDQVEKVGQVIRVICILNHPIKNTNDAN

Parental  SCQIIIPQNQVNRKSDIYVCMISYAHNVAAQGKYIAIASTTVETTEPEKEVEPALELLEPIDQKFVAISD
          SCQI.IPQNQV.RKSD.YVCMIS.AHNVAAQGK.IAI...TVET.EPEKE..PALELL.PI.QKFV.ISD
Retrocopy SCQITIPQNQVSRKSDVYVCMISFAHNVAAQGKSIAIVGITVETKEPEKEIRPALELLGPIEQKFVSISD

Parental  LYEPIDDGSESQVFCSCSYDATTHFETTCNDIKDIYKRMVGSAFDFENMKRKQNDVFGE
          L..P.D.G.ESQ.F.S..YDATTHFETT..DIKDIYKRM.GS..DFE.MK.K..D..GE
Retrocopy LLVPKDLGTESQIFISRTYDATTHFETTYDDIKDIYKRMTGSESDFEEMKHKKSDIYGE

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tupaia belangeri was not studied using RNA-Seq expression data.

ChIP-Seq

Tupaia belangeri was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_tbel_1832 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_1832 was not experimentally validated.

Homology

Retrocopy orthology:

Tupaia belangeri 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 6 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000010921	4 retrocopies	retro_meug_1228, retro_meug_2135, retro_meug_561, retro_meug_795,
Microcebus murinus	ENSMICG00000016418	1 retrocopy	retro_mmur_1095,
Sarcophilus harrisii	ENSSHAG00000005650	1 retrocopy	retro_shar_43,
Tupaia belangeri	ENSTBEG00000011523	1 retrocopy	retro_tbel_644,
Tupaia belangeri	ENSTBEG00000012540	4 retrocopies	retro_tbel_1832 , retro_tbel_2262, retro_tbel_2457, retro_tbel_3930,
Tursiops truncatus	ENSTTRG00000011454	1 retrocopy	retro_ttru_1205,