RetrogeneDB ID: retro_tbel_3245

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_134815:47263..47724(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: METTL1
• Ensembl ID: ENSTBEG00000011522
• Aliases: None
• Description: methyltransferase like 1 [Source:HGNC Symbol;Acc:7030]

Sequence

>retro_tbel_3245
CTCCAACCCCAGGCGAAGGTCTCAGACGACGTGCAAGACCAGATTCCAGCCCTACGCGCAGCTGCGGAGGTGGCTTCCAG
AACATGGCCTGTCTCCGGAATAATGTCATGAAGCACCTTCCTAACTTCTTCCACAAGGGCCAGCTCACAAAGATGTTCTT
TCTTTTCCCTGAACCACATTTCAAGTGGACAAAGCAAAAATGGTGAATCATCGGTCCCAGTCTGCTAGCAGAAATTGTCT
AGTGCTGAGAGCTGGGGGACTGTGTACACCATAACCAACGAGCTGGAAATACACAACTGGATGTGCACTCACCTTGAAGG
GCACTCCCTGTTTGAGTGAATGCCTCTGGGAAAGCTGGGTGAACACCCCATTGTGGAACATCTAGGCACCTCAACAGAGA
GGGAAAGAAAGTTCTACATAATGGAGGAGAGAATTTCCCAGCCATCTTCTGACGAATACAG

Alignment

ORF - retro_tbel_3245 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.47 %
• Parental protein coverage: 55.96 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  LEIRVKVSDYVQDRIRALRAAP-GGGFQNIACLRSNAMKHLPNFFHKGQLTKMFFLFPDPHFKRTKHKWR
          L....KVSD.VQD.I.ALRAA..GGGFQN.ACLR.N.MKHLPNFFHKGQLTKMFFLFP.PHFK.TK.KW.
Retrocopy LQPQAKVSDDVQDQIPALRAAA<GGGFQNMACLRNNVMKHLPNFFHKGQLTKMFFLFPEPHFKWTKQKW*

Parental  IISPTLLAEY-AYVLRIGGL-VYTITDVLELHSWMCTHFEGHPLFERVPLDELGEDPIVGHLGTSTE-EG
          II.P.LLAE....VLR.GGL.VYTIT..LE.H.WMCTH.EGH.LFE..PL..LGE.PIV.HLGTSTE.EG
Retrocopy IIGPSLLAEI<CLVLRAGGL<VYTITNELEIHNWMCTHLEGHSLFE*MPLGKLGEHPIVEHLGTSTE<EG

Parental  KKVLRNGGENFPAIFRRIQ
          KKVL.NGGENFPAIF.RIQ
Retrocopy KKVLHNGGENFPAIF*RIQ

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_3245 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_3245 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 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000006615	1 retrocopy	retro_cjac_2888,
Homo sapiens	ENSG00000037897	1 retrocopy	retro_hsap_4796,
Gorilla gorilla	ENSGGOG00000001411	1 retrocopy	retro_ggor_2985,
Microcebus murinus	ENSMICG00000003803	1 retrocopy	retro_mmur_345,
Macaca mulatta	ENSMMUG00000022148	1 retrocopy	retro_mmul_2556,
Nomascus leucogenys	ENSNLEG00000017183	1 retrocopy	retro_nleu_1110,
Pongo abelii	ENSPPYG00000004706	1 retrocopy	retro_pabe_3730,
Tupaia belangeri	ENSTBEG00000011522	1 retrocopy	retro_tbel_3245 ,