RetrogeneDB ID: retro_tbel_3335

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_137695:4105..4603(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ANXA2
• Ensembl ID: ENSTBEG00000001276
• Aliases: None
• Description: annexin A2 [Source:HGNC Symbol;Acc:537]

Sequence

>retro_tbel_3335
CTTGTCAAGGGTAAAAGAGCAGAGGAAGGCTCTGTCACTGACTACGAGCTGATAGATCAGGATGCCCAGGATCTCTATGA
TGCTGGAGTGAAGAGGAAAGGAACTGATGTTCCTAAGTGGATCAGCATCATGACTGAGTAGAGCCTGTGCCACCTCTAGA
AAGTATTTGACAGGGACAAGAGTTTCAGCCCTTACAACATGCTGGAGAGCATCAAGAAGGAGGTCAAGGGAGACCTAGAA
AACGCTTTCCTGAACCTGGTTCAGTGTATTCAGAATGAGCCTCTGTATTTTGCTGATCAGCTCTACGACTCCATAAAGGG
CAAGAGGACCTGCGATGAGGACCTGCTTAGAATCATGGTCTCCCGCAGTGAAGTGGACTTGTTGAAAATTAGGTCTGAAT
TCAAGAGAAAGTATGGCAGGTCCTTATAGTACTATATCCAGCAAAACACTAAGGGCAACCAGCAGAAAGCATGGCTGTTC
CTGTGTGGTGGGGACAAC

Alignment

ORF - retro_tbel_3335 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.53 %
• Parental protein coverage: 51.39 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LAKGRRAEDGSVIDYELIDQDARDLYDAGVKRKGTDVPKWISIMTERSVCHLQKVFDRYKSYSPYDMLES
          L.KG.RAE.GSV.DYELIDQDA.DLYDAGVKRKGTDVPKWISIMTE.S.CHL.KVFDR.KS.SPY.MLES
Retrocopy LVKGKRAEEGSVTDYELIDQDAQDLYDAGVKRKGTDVPKWISIMTE*SLCHL*KVFDRDKSFSPYNMLES

Parental  IKKEVKGDLENAFLNLVQCIQNKPLYFADRLYDSMKGKGTRDKVLIRIMVSRSEVDMLKIRSEFKRKYGK
          IKKEVKGDLENAFLNLVQCIQN.PLYFAD.LYDS.KGK.T.D..L.RIMVSRSEVD.LKIRSEFKRKYG.
Retrocopy IKKEVKGDLENAFLNLVQCIQNEPLYFADQLYDSIKGKRTCDEDLLRIMVSRSEVDLLKIRSEFKRKYGR

Parental  SLYYYIQQDTKGDYQKGLLYLCGGDD
          SL.YYIQQ.TKG..QK..L.LCGGD.
Retrocopy SL*YYIQQNTKGNQQKAWLFLCGGDN

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_3335 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_3335 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 11 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000016686	3 retrocopies	retro_cfam_1631, retro_cfam_367, retro_cfam_707,
Felis catus	ENSFCAG00000007862	2 retrocopies	retro_fcat_594, retro_fcat_709,
Macropus eugenii	ENSMEUG00000008980	3 retrocopies	retro_meug_1000, retro_meug_312, retro_meug_389,
Myotis lucifugus	ENSMLUG00000002464	3 retrocopies	retro_mluc_1569, retro_mluc_2223, retro_mluc_2431,
Monodelphis domestica	ENSMODG00000011604	1 retrocopy	retro_mdom_1471,
Mustela putorius furo	ENSMPUG00000000762	2 retrocopies	retro_mputfur_73, retro_mputfur_79,
Otolemur garnettii	ENSOGAG00000009952	1 retrocopy	retro_ogar_3510,
Pan troglodytes	ENSPTRG00000007132	2 retrocopies	retro_ptro_2106, retro_ptro_81,
Tupaia belangeri	ENSTBEG00000001276	1 retrocopy	retro_tbel_3335 ,
Tarsius syrichta	ENSTSYG00000003719	1 retrocopy	retro_tsyr_2086,
Vicugna pacos	ENSVPAG00000007888	2 retrocopies	retro_vpac_241, retro_vpac_27,