RetrogeneDB ID: retro_tbel_52

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_5190:29340..29661(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTBEG00000004681
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTBEG00000015808
• Aliases: None
• Description: None

Sequence

>retro_tbel_52
ATGGTCAATGTACCTAAAACTCGAAGGACTTTCTGTAAGAAATGTGGCAAGCATCAGCCTCACAAAGTGACCCAGTATAA
GAAGGGCAAGGATTCCCTGTATGCTCAAGGGAAGAGGCGCTACGACCGGAAGCAGAGTGGCTATGGTGGGCAGACAAAGC
CAATTTTCCGGAAGAAGGCTAAAACCACAAAGAAGATTGTCCTAAGGCTTGAGTGTGTTGAACCGAACTGCAGATCCAAG
AGGATGCTGGCCATTAAAAGATGCAAACATTTTGAACTGGGGGGAGATAAGAAGAGAAAGGGCCAGGTGATCCAGTTCTA
A

Alignment

ORF - retro_tbel_52 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 100.0 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VNVPKTRRTFCKKCGKHQPHKVTQYKKGKDSLYAQGKRRYDRKQSGYGGQTKPIFRKKAKTTKKIVLRLE
          VNVPKTRRTFCKKCGKHQPHKVTQYKKGKDSLYAQGKRRYDRKQSGYGGQTKPIFRKKAKTTKKIVLRLE
Retrocopy VNVPKTRRTFCKKCGKHQPHKVTQYKKGKDSLYAQGKRRYDRKQSGYGGQTKPIFRKKAKTTKKIVLRLE

Parental  CVEPNCRSKRMLAIKRCKHFELGGDKKRKGQVIQF
          CVEPNCRSKRMLAIKRCKHFELGGDKKRKGQVIQF
Retrocopy CVEPNCRSKRMLAIKRCKHFELGGDKKRKGQVIQF

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_52 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_52 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 7 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000008503	1 retrocopy	retro_acar_98,
Canis familiaris	ENSCAFG00000017688	1 retrocopy	retro_cfam_154,
Loxodonta africana	ENSLAFG00000017385	1 retrocopy	retro_lafr_114,
Monodelphis domestica	ENSMODG00000025578	2 retrocopies	retro_mdom_1878, retro_mdom_971,
Mustela putorius furo	ENSMPUG00000002168	3 retrocopies	retro_mputfur_269, retro_mputfur_530, retro_mputfur_94,
Sarcophilus harrisii	ENSSHAG00000013479	1 retrocopy	retro_shar_467,
Tupaia belangeri	ENSTBEG00000015808	1 retrocopy	retro_tbel_52 ,