RetrogeneDB ID: retro_tbel_3693

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_148596:949..1430(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RRM2B
• Ensembl ID: ENSTBEG00000008855
• Aliases: None
• Description: ribonucleotide reductase M2 B (TP53 inducible) [Source:HGNC Symbol;Acc:17296]

Sequence

>retro_tbel_3693
GTGGATCTTTCCGAGGACAACCAGCACTGGGAAGCCCTGAAGCCTAAGGAGGGATATTACATATCCCATGTTCTGGCTTT
CTTTGTAGCATGTGATGGCATCGTAAATGAAAACCTGGTGGAGCGATTTAGCCAAGAAGTTCACATTACAGAAGCCCGCT
GTTTGTATGGCTTCCAAATTGCCATGGAAAACATACCTTCTGAAATGTATAGTTTCCTTATTGACACTTACATTAAAGAT
TCCAAAGAAAGGGAATTTTTCTTCAGTGCCATTGAAACCATGCCTTGTGTCAAGAAGAAGGCAGATTGGGCCTTGCGTTG
GATTGGGGACAAAGGAGGCTACCTATGGAGAACGTTGTGTAGCTTTTGCAGCAGTAGAAGGAATCTTCTTTACTGGCTCG
TTTGCATAGATATTCTGGCTCAAGGAACGAAGACTGATGCCTGGTCTCACATTTTCCAATGAACTGATTAGCAGAGATGA
G

Alignment

ORF - retro_tbel_3693 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.91 %
• Parental protein coverage: 55.6 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VDLSKDLLHWK-LKPDEKF-ISHIA--FAASDGIVN--LVERFSQEVQIPEARCFYGFQILIENVHSEMY
          VDLS.D..HW..LKP.E...ISH....F.A.DGIVN..LVERFSQEV.I.EARC.YGFQI..EN..SEMY
Retrocopy VDLSEDNQHWEALKPKEGYYISHVLAFFVACDGIVNENLVERFSQEVHITEARCLYGFQIAMENIPSEMY

Parental  SLLIDTYIRDPKKREFLFNAIETMPYVKKKADWALRWIAD-RKSTFGERVVAFAAVEGIFFSGSFAAIFW
          S.LIDTYI.D.K.REF.F.AIETMP.VKKKADWALRWI.D....T.GER.VAFAAVEGIFF.GSFA.IFW
Retrocopy SFLIDTYIKDSKEREFFFSAIETMPCVKKKADWALRWIGD>KEATYGERCVAFAAVEGIFFTGSFA*IFW

Parental  LKKRGLMPGLTFSNELISRDE
          LK.R.LMPGLTFSNELISRDE
Retrocopy LKERRLMPGLTFSNELISRDE

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_3693 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_3693 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 9 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012265	4 retrocopies	retro_chof_1118, retro_chof_1233, retro_chof_277, retro_chof_692,
Callithrix jacchus	ENSCJAG00000015923	1 retrocopy	retro_cjac_4130,
Echinops telfairi	ENSETEG00000020338	1 retrocopy	retro_etel_1219,
Gorilla gorilla	ENSGGOG00000003053	1 retrocopy	retro_ggor_3001,
Mus musculus	ENSMUSG00000022292	1 retrocopy	retro_mmus_988,
Otolemur garnettii	ENSOGAG00000004487	1 retrocopy	retro_ogar_2602,
Pan troglodytes	ENSPTRG00000020481	1 retrocopy	retro_ptro_3204,
Ictidomys tridecemlineatus	ENSSTOG00000008543	2 retrocopies	retro_itri_1555, retro_itri_877,
Tupaia belangeri	ENSTBEG00000008855	1 retrocopy	retro_tbel_3693 ,