RetrogeneDB ID: retro_tbel_2646

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_115270:227835..228708(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SUV39H2
• Ensembl ID: ENSTBEG00000006477
• Aliases: None
• Description: suppressor of variegation 3-9 homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:17287]

Sequence

>retro_tbel_2646
GAGGATATGGAATATTACCTTGTAAAATGGAAAGGATGGCCAGATTCTACAAATACTTGGGAACCTTTGCAAAATCTTAA
GTGCCCATTACTGCTTCAGCAGTTTTCTAAAGACAAGCATAATTATTTATCTCAGGTAAAGAAAGGCAAAGCAATAACTT
CAAAAGACAATAACAAAACCCTGAAACGTGCCATTGCTGAGTACATTGTAAAGAAAGCTAAACAAAGGATAGCTCTGCAG
AGATGGCAAGATGAACTCAACAGAAGAAAGAATCATAAAGGAATGCTATTTGTTGAAAATACTGTTGACTTAGAGGGCCC
TCCTTCAGACTTCTACTACATTAATGAATACAAACCAGCTCCTGGAATCAGCTTAGTAAATGAAGCTACCTTTGGTTGTT
CTTGCACAGATTGCTTCTTTGAGAAATGTTGTCCTGCCGAAGCTGGAGTTCTTTTGGCTTATAATAAAAACCAACAAATT
AAAATTCCACCTGGAACCCCCATCTATGAATGTAACTCAAGGTGTCAATGTGGACCTGATTGTCCCAATAGGATTGTACA
AAAAGGCACACAGTATTCACTCTGCATTTTTCGAACTAGCAATGGCTGTGGCTGGGGTGTAAAAACCCTTGTGAAGATTA
AAAGAATGAGTTTTGTCATGGAATATGTTGGAGAGGTAATCACAAGTGAAGAAGCTGAAAGAAGAGGGCAGTTATATGAC
AACAAAGGAATCACATATCTCTTTGATCTGGACTATGAATCTGATGAATTCACAGTGGATGCAGCTCGATATGGAAATGT
GTCTCATTTTGTGAATCACAGTTGTGACCCAAATCTTCAGGTGTTCAATGTTTTCATTGATAACCTTGATACT

Alignment

ORF - retro_tbel_2646 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.66 %
• Parental protein coverage: 70.98 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KDMEYYLVKWKGWPDSTNTWEPLQNLKCPLLLQQFSKDKHNYLSQVKKGKAITSKDNNKTLKRAIAEYIV
          .DMEYYLVKWKGWPDSTNTWEPLQNLKCPLLLQQFSKDKHNYLSQVKKGKAITSKDNNKTLKRAIAEYIV
Retrocopy EDMEYYLVKWKGWPDSTNTWEPLQNLKCPLLLQQFSKDKHNYLSQVKKGKAITSKDNNKTLKRAIAEYIV

Parental  KKAKQRIALQRWQDELNRRKNHKGMLFVENTVDLEGPPSDFYYINEYKPAPGISLVNEATFGCSCTDCFF
          KKAKQRIALQRWQDELNRRKNHKGMLFVENTVDLEGPPSDFYYINEYKPAPGISLVNEATFGCSCTDCFF
Retrocopy KKAKQRIALQRWQDELNRRKNHKGMLFVENTVDLEGPPSDFYYINEYKPAPGISLVNEATFGCSCTDCFF

Parental  EKCCPAEAGVLLAYNKNQQIKIPPGTPIYECNSRCQCGPDCPNRIVQKGTQYSLCIFRTSNGCGWGVKTL
          EKCCPAEAGVLLAYNKNQQIKIPPGTPIYECNSRCQCGPDCPNRIVQKGTQYSLCIFRTSNGCGWGVKTL
Retrocopy EKCCPAEAGVLLAYNKNQQIKIPPGTPIYECNSRCQCGPDCPNRIVQKGTQYSLCIFRTSNGCGWGVKTL

Parental  VKIKRMSFVMEYVGEVITSEEAERRGQLYDNKGITYLFDLDYESDEFTVDAARYGNVSHFVNHSCDPNLQ
          VKIKRMSFVMEYVGEVITSEEAERRGQLYDNKGITYLFDLDYESDEFTVDAARYGNVSHFVNHSCDPNLQ
Retrocopy VKIKRMSFVMEYVGEVITSEEAERRGQLYDNKGITYLFDLDYESDEFTVDAARYGNVSHFVNHSCDPNLQ

Parental  VFNVFIDNLDT
          VFNVFIDNLDT
Retrocopy VFNVFIDNLDT

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_2646 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2646 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 10 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000004696	1 retrocopy	retro_cfam_574,
Cavia porcellus	ENSCPOG00000008492	1 retrocopy	retro_cpor_1546,
Homo sapiens	ENSG00000152455	1 retrocopy	retro_hsap_3482,
Gorilla gorilla	ENSGGOG00000028243	1 retrocopy	retro_ggor_2348,
Microcebus murinus	ENSMICG00000002803	1 retrocopy	retro_mmur_340,
Nomascus leucogenys	ENSNLEG00000012108	1 retrocopy	retro_nleu_2202,
Oryctolagus cuniculus	ENSOCUG00000015090	1 retrocopy	retro_ocun_1408,
Ochotona princeps	ENSOPRG00000009465	1 retrocopy	retro_opri_1005,
Pongo abelii	ENSPPYG00000002106	1 retrocopy	retro_pabe_2877,
Tupaia belangeri	ENSTBEG00000006477	4 retrocopies	retro_tbel_2646 , retro_tbel_3572, retro_tbel_852, retro_tbel_993,