RetrogeneDB ID: retro_tbel_216

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_1478:167601..168164(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MOCS2
• Ensembl ID: ENSTBEG00000008942
• Aliases: None
• Description: molybdenum cofactor synthesis 2 [Source:HGNC Symbol;Acc:7193]

Sequence

>retro_tbel_216
AGCTTCGAGATCAGCTCCTTTTGCTTAAACCAGGAGATGAAAGTACCATTATCCCTTCCAATAGTGGAGGGTAGTACTTT
TGAGACATTCAGGAAAGAGATGGATGAAGTTGAAGCAAAATCTAAGGATATAATAAAATTTACTGCCAAGAAACTTTCAG
TAGATAAAGTCTCACAGTTGGTGGTTTCTCCACTCTGTGGTGCAAAATAGTTCCTATTTGTAGGAACTACAAGAAATAAC
TTTGAAGGAAAAAGAGTCATTAGCTTAGAATATGAAGCATATCTACCTATGGCAGAAAATGAAGTCAGAAAAATCTGTAG
TGACGTTAGGTAGAAATGGCCAGTCAAATACATAGCAGTGTTCCATAGACTTGGCTTGGTTCCAGTGTCAGAAGCAAGCA
TAACCATTCTGTGTCCTCAGCCCACAGATCTGTGCCCTTTGAAGCTGTGAGCTATGCCATTGACACTTTAAAAGCCAAGG
TGCCCATATGGGTAAAGAAAATGTATGAAGAGTCTTCATCATCTTGGAAAAGAAACAAAGAATGCTTCTGGACAACCCGT
GAT

Alignment

ORF - retro_tbel_216 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.07 %
• Parental protein coverage: 98.94 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SLEISSSCFNQETKLPLSPLLVEGSTFESLRKEMDEVEEESKDIIKFTAEKLSVDEVSQLVVSPLCGAI-
          S.EISS.C.NQE.K.PLS...VEGSTFE..RKEMDEVE..SKDIIKFTA.KLSVD.VSQLVVSPLCGA..
Retrocopy SFEISSFCLNQEMKVPLSLPIVEGSTFETFRKEMDEVEAKSKDIIKFTAKKLSVDKVSQLVVSPLCGAK*

Parental  SLFVGTTRNNFEGKKVISLEYEAYLPMAENEVRKICSDIREKWPVKHIAVFHRLGLVPVSEASIII-AVS
          .LFVGTTRNNFEGK.VISLEYEAYLPMAENEVRKICSD.R.KWPVK.IAVFHRLGLVPVSEASI.I..VS
Retrocopy FLFVGTTRNNFEGKRVISLEYEAYLPMAENEVRKICSDVR*KWPVKYIAVFHRLGLVPVSEASITI<SVS

Parental  SAHRAASLEAVSYAIDTLKAKVPIWKKEMYEESSSSWKRNKECFWATHD
          SAHR....EAVSYAIDTLKAKVPIW.K.MYEESSSSWKRNKECFW.T.D
Retrocopy SAHRSVPFEAVSYAIDTLKAKVPIWVKKMYEESSSSWKRNKECFWTTRD

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_216 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_216 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 10 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000005380	1 retrocopy	retro_btau_487,
Cavia porcellus	ENSCPOG00000015752	2 retrocopies	retro_cpor_746, retro_cpor_748,
Macaca mulatta	ENSMMUG00000020449	1 retrocopy	retro_mmul_581,
Monodelphis domestica	ENSMODG00000019459	1 retrocopy	retro_mdom_1654,
Oryctolagus cuniculus	ENSOCUG00000011406	1 retrocopy	retro_ocun_575,
Otolemur garnettii	ENSOGAG00000011108	1 retrocopy	retro_ogar_2170,
Pteropus vampyrus	ENSPVAG00000010175	1 retrocopy	retro_pvam_633,
Ictidomys tridecemlineatus	ENSSTOG00000010607	1 retrocopy	retro_itri_241,
Tupaia belangeri	ENSTBEG00000008942	3 retrocopies	retro_tbel_1128, retro_tbel_216 , retro_tbel_3310,
Tarsius syrichta	ENSTSYG00000001351	1 retrocopy	retro_tsyr_510,