RetrogeneDB ID: retro_tbel_4062

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_615:6755..7569(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RNMT
• Ensembl ID: ENSTBEG00000005594
• Aliases: None
• Description: RNA (guanine-7-) methyltransferase [Source:HGNC Symbol;Acc:10075]

Sequence

>retro_tbel_4062
CATGATATCACAGTTTTGGACCTGGGATGTGGTAAAGGTGGAGATTTGCTCAAGTGGAAAAAGGGAAGAATTAGCAAGCT
AGTTTGTACTGATATCGCTGATGTTTCTGTCAAACAGTGTCAGCAGCGGTAAGAGGATATGAAAAATCGTCGTGATGAAT
ATATTTTTAATGCAGAATTTATAACTGCTGACTCTTCAAAGGAACTTTTGACTGACAAGTTTCATGACTGAGAAATGTGT
TTCGACATCTGCAGTTGTCAGTTTGTCTGTCATTACTCGTTTGAATCCTATGAGCAGGCTGACATGATGCTCAGAAACGC
TTGTGAGAGACTTAGCCCTGGAGGCTATTTTATTGGTACCAATCCCAATAGCTCTGAACTGATAAGATGCCTTCAAGCTT
CAGAAACAGAATCATTTGGAAATGAAATATATACTGTGAAATTTCAGAAGAAAGGAGAATATCCTTTATTTGGCTGCAAA
TATGACTTCAAGTTGGAAAGTGTTGTGGATGTTCCCTGAGTTCTTGGTCTGTTTTCCATTGCTAAATGAAATGGTGAAGA
AATACAATATGAAACTAGTATACAAAAAAACATTTCTGGAATTCTACGAAGAAAAGATTAAGAACAATGAAAATAAAATG
CTGTTAAAACGAATGCAGGCCTTGGAGTCATATCCTGCAAACGACATTTCTAAACTTGCCTCTGAGAAGGACGATGACTA
TGAGCATGCAGCAGAATACATGAAAAACAGTCAAGTAAAGTTACCTTTGGGAACCTTAAGTAAATCAGAATGGGCAGCTA
CAAGTATTTACTTG

Alignment

ORF - retro_tbel_4062 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.49 %
• Parental protein coverage: 55.53 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  HDITVLDLGCGKGGDLLKWKKGRINKLVCTDIADVSVKQCQQRYEDMKNRRDEYIFNAEFITADSSKELL
          HDITVLDLGCGKGGDLLKWKKGRI.KLVCTDIADVSVKQCQQR.EDMKNRRDEYIFNAEFITADSSKELL
Retrocopy HDITVLDLGCGKGGDLLKWKKGRISKLVCTDIADVSVKQCQQR*EDMKNRRDEYIFNAEFITADSSKELL

Parental  TDKFHDREMCFDICSCQFVCHYSFESYEQADMMLRNACERLSPGGYFIGTTPNSFELIRRLQASETEAFG
          TDKFHD.EMCFDICSCQFVCHYSFESYEQADMMLRNACERLSPGGYFIGT.PNS.ELIR.LQASETE.FG
Retrocopy TDKFHD*EMCFDICSCQFVCHYSFESYEQADMMLRNACERLSPGGYFIGTNPNSSELIRCLQASETESFG

Parental  NEIYTVKFQKKGEYPLFGCKYDFKLEGVVDV-PEFLVYFPLLNEMVKKYNMKLVYKKTFLEFYEEKIKNN
          NEIYTVKFQKKGEYPLFGCKYDFKLE.VVDV.PEFLV.FPLLNEMVKKYNMKLVYKKTFLEFYEEKIKNN
Retrocopy NEIYTVKFQKKGEYPLFGCKYDFKLESVVDV>PEFLVCFPLLNEMVKKYNMKLVYKKTFLEFYEEKIKNN

Parental  ENKMLLKRMQALEPYPANDISKLASEKDDDYEHAAEYMKNSQVKLPLGTLSKSEWAATRLLM
          ENKMLLKRMQALE.YPANDISKLASEKDDDYEHAAEYMKNSQVKLPLGTLSKSEWAAT....
Retrocopy ENKMLLKRMQALESYPANDISKLASEKDDDYEHAAEYMKNSQVKLPLGTLSKSEWAATSIYL

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_4062 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_4062 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000000172	1 retrocopy	retro_cfam_1929,
Cavia porcellus	ENSCPOG00000011388	1 retrocopy	retro_cpor_442,
Monodelphis domestica	ENSMODG00000021415	1 retrocopy	retro_mdom_1781,
Tupaia belangeri	ENSTBEG00000005594	1 retrocopy	retro_tbel_4062 ,