RetrogeneDB ID: retro_tbel_3671

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_148163:9704..10364(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTBEG00000002194
• Aliases: None
• Description: None

Sequence

>retro_tbel_3671
ATGAAGAGTGTGGTCTACCGTGCTTTTTCTCAGAAAGAAGCAAAAGAGTTCGATGTTCAGCATGCAGGAGTCACGCAGGC
CGAGGCCTTTGTGAAGGCCTTCCTGAAGCACAGCGTGCCCCGCATGAGCCAGCAAGCCCTGGAGGACCAGTTGCAGCGCA
AGGCCGTTATTCTAGAGTACTTCACTAGCAAGAAGAGAAAGGAGAAGAAAAAGAAATCCAAAGGCCTCTCTGCCAGACAG
AGGAGGGAACTGCGGCTCTTTGACATTAAGCCAGAGCAACAGAGATACAGTCTTTTTCTCCCACTGCGTGAACTTTGGAA
GCAGTACATCCGGGACCTGTGCAATGGTCTCAAGCCCGACACGCAGCCACAGATGATTCAAGCCAAGCTGTTAAAGGCAG
ATCTTCACGGTGCTATTATTTCAGTCACAAAATCCAAATGCCCCTTGTATGTGGGTGTTACAGGAATTCTTCTACAGGAA
ACCAAGCACGTTTTCAAAATTATCAACAAAGAAGACCGCCTGAAAGTTATCCCCAAGCTAAATTGTGTGTTCACTGTGGA
AATCGATGACTTTGTATCCTACATTTATGGGAGCAAATTCCAGCTTCGATCAAGTGAGCGGTCTGCAAAGAAGTTTAAAG
CAAAGGGCACAATCGACCTC

Alignment

ORF - retro_tbel_3671 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.93 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKSVVYRAFSQKEAKEFDVQHAGVARAEAFVKAFLKRSVPRMSQQALEDQLQRKAVILEYFTRRRKRKEK
          MKSVVYRAFSQKEAKEFDVQHAGV..AEAFVKAFLK.SVPRMSQQALEDQLQRKAVILEYFT...KRKEK
Retrocopy MKSVVYRAFSQKEAKEFDVQHAGVTQAEAFVKAFLKHSVPRMSQQALEDQLQRKAVILEYFTSK-KRKEK

Parental  KKKSKGLSARQRRELRLFDIKPEQQRYSLFLPLHELWKQYIRDLCNGLKPDTQPQMIQAKLLKADLHGAI
          KKKSKGLSARQRRELRLFDIKPEQQRYSLFLPL.ELWKQYIRDLCNGLKPDTQPQMIQAKLLKADLHGAI
Retrocopy KKKSKGLSARQRRELRLFDIKPEQQRYSLFLPLRELWKQYIRDLCNGLKPDTQPQMIQAKLLKADLHGAI

Parental  ISVTKSKCPSYVGVTGILLQETKHVFKIITKEDRLKVIPKLNCVFTVEIDDFVSYIYGSKFQLRSSERSA
          ISVTKSKCP.YVGVTGILLQETKHVFKII.KEDRLKVIPKLNCVFTVEIDDFVSYIYGSKFQLRSSERSA
Retrocopy ISVTKSKCPLYVGVTGILLQETKHVFKIINKEDRLKVIPKLNCVFTVEIDDFVSYIYGSKFQLRSSERSA

Parental  KKFKAKGTIDL
          KKFKAKGTIDL
Retrocopy KKFKAKGTIDL

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_3671 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_3671 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 5 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Mustela putorius furo	ENSMPUG00000008041	1 retrocopy	retro_mputfur_1088,
Oryctolagus cuniculus	ENSOCUG00000015974	1 retrocopy	retro_ocun_1367,
Otolemur garnettii	ENSOGAG00000011168	2 retrocopies	retro_ogar_3293, retro_ogar_541,
Sorex araneus	ENSSARG00000004748	1 retrocopy	retro_sara_410,
Tupaia belangeri	ENSTBEG00000002194	6 retrocopies	retro_tbel_1225, retro_tbel_1516, retro_tbel_2043, retro_tbel_3671 , retro_tbel_3821, retro_tbel_89,