RetrogeneDB ID: retro_tbel_2457

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_111027:4084..5371(-)
• 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_2457
GAATGTATCCTGTCAGGTATAATGTCAGTGAATGGAAAGAAAGTTCTTCACATGAATCGAAACCCATATTACGGAGGAGG
AAGTGCATCTATAAGACCACTGGAAGATTTATACAAAAGATTTAAAATACCAGGAGCACCACCAGCGTCAATGGGGAGAG
GAAGAGACTGGAACGTTGACTTAATTCCCAAGTTCCTTATGGCTAATGGTCAGCTGGTTAAGATGCTGCTTTATACAGAG
GTTACTCGTTACCTGGATTTCAAAGTGACCGAAGGGAGCTTTGTCTATAAGGGAGGAAAAATCTATAAGGTTCCTTCCAC
TGAAGCTGAAGCCCTAGCATCTAGCTTAATGGGACTATTTGAAAAACGTCGCTTCAGGAAATTCCTAGTGTATGTTGCCA
ACTTTGATGAAAAAGATTCTAGAACTTTTGAGGGCATTGATCCTAATAAGACTTCAATGTGAGATGTGTACAAGAAATTT
GATTTGGGCCAAGACGTGATAGATTTTACTGGTCATGCTCTTGCACTTTACCGAACTGATGACTACTTAGATCAACCATG
TTGTGAAACCATTAATAGGATTAAACTTTACAGTGAATCCTTGGCAAGATATGGTAAAAGCCCATACCTTTATCCACTCT
ATGGCCTTGGAGAATTGCCACAAGGATTTGCAAGGCTAAGTGCTATTTATGGAGGTACCTACATACTCAATAAACCAATT
GAAGAAATCATTGTGCAGAATGGAAAAGTTATTGGTGTAAAATCTGAAGGAAAGATTGCTCACTGTAAACAGCTCATTTG
TGATCCCAGCTATGTCAAGGATCGGGTAGAAAAAGTGGGCCAGGTAATCTGTGTCATCTGCATCCTCAACCACCCCATCA
AGAATACCAATGATACCAACTCTTGCCAGATTATCATTCTTCAGAACCAAGTCAGTCGAAAATCAGATATCTATGTTTGT
ATGATCTCCTTTGCACACAACGTGGCAGCACAAGGGAAATACATTGCCATAGTCAGTACAACTGTGGAAACCAAGGAACC
TGAGAAGGAAATTAGACCAGCTTTGGAGCTCTTGGGACCAATTGAACATAAATTTGTTAGCATCAGTGATCTCCTTATAC
CGAAAGATTTGGGGACAGAAAGCCAGATCTTTATTTCTCGCACATATGATGCTACAACTCATTTTGAGACAACCTGTGAT
GACATTAAAGACATCTATAAGAGAATGACAGGATCAGAGTTTGACTTTGAGGAAATGAAGCGCAAGAAAAATGACATCTA
CGGGGAA

Alignment

ORF - retro_tbel_2457 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.52 %
• Parental protein coverage: 99.31 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ECILSGIMSVNGKKVLHMDRNPYYGGESSSITPLEELYKRFQLLEGPPESMGRGRDWNVDLIPKFLMANG
          ECILSGIMSVNGKKVLHM.RNPYYGG.S.SI.PLE.LYKRF.....PP.SMGRGRDWNVDLIPKFLMANG
Retrocopy ECILSGIMSVNGKKVLHMNRNPYYGGGSASIRPLEDLYKRFKIPGAPPASMGRGRDWNVDLIPKFLMANG

Parental  QLVKMLLYTEVTRYLDFKVVEGSFVYKGGKIYKVPSTETEALASNLMGMFEKRRFRKFLVFVANFDENDP
          QLVKMLLYTEVTRYLDFKV.EGSFVYKGGKIYKVPSTE.EALAS.LMG.FEKRRFRKFLV.VANFDE.D.
Retrocopy QLVKMLLYTEVTRYLDFKVTEGSFVYKGGKIYKVPSTEAEALASSLMGLFEKRRFRKFLVYVANFDEKDS

Parental  KTFEGVDPQTTSMRDVYRKFDLGQDVIDFTGHALALYRXXXYLDQPCLETINRIKLYSESLARYGKSPYL
          .TFEG.DP..TSM.DVY.KFDLGQDVIDFTGHALALYR...YLDQPC.ETINRIKLYSESLARYGKSPYL
Retrocopy RTFEGIDPNKTSM*DVYKKFDLGQDVIDFTGHALALYRTDDYLDQPCCETINRIKLYSESLARYGKSPYL

Parental  YPLYGLGELPQGFARLSAIYGGTYMLNKPVDDIIMENGKVVGVKSEGEVARCKQLICDPSYIPDRVRKAG
          YPLYGLGELPQGFARLSAIYGGTY.LNKP...II..NGKV.GVKSEG..A.CKQLICDPSY..DRV.K.G
Retrocopy YPLYGLGELPQGFARLSAIYGGTYILNKPIEEIIVQNGKVIGVKSEGKIAHCKQLICDPSYVKDRVEKVG

Parental  QVVRIICILSHPIKNTNEANSCQIIIPQNQVNRKSDIYVCMISYAHNVAAQGKYIAIASTTVETTEPEKE
          QV...ICIL.HPIKNTN..NSCQIII.QNQV.RKSDIYVCMIS.AHNVAAQGKYIAI.STTVET.EPEKE
Retrocopy QVICVICILNHPIKNTNDTNSCQIIILQNQVSRKSDIYVCMISFAHNVAAQGKYIAIVSTTVETKEPEKE

Parental  VEPALELLEPIDQKFVAISDLYEPIDDGSESQVFCSCSYDATTHFETTCNDIKDIYKRMVGSAFDFENMK
          ..PALELL.PI..KFV.ISDL..P.D.G.ESQ.F.S..YDATTHFETTC.DIKDIYKRM.GS.FDFE.MK
Retrocopy IRPALELLGPIEHKFVSISDLLIPKDLGTESQIFISRTYDATTHFETTCDDIKDIYKRMTGSEFDFEEMK

Parental  RKQNDVFGE
          RK.ND..GE
Retrocopy RKKNDIYGE

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_2457 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2457 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.

---

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,