RetrogeneDB ID: retro_tbel_3244

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_134751:55739..56468(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ALDOB
• Ensembl ID: ENSTBEG00000009298
• Aliases: None
• Description: aldolase B, fructose-bisphosphate [Source:HGNC Symbol;Acc:417]

Sequence

>retro_tbel_3244
TCCCCCCTTGCAGAAACAAACCAAGAAACCACCATTCAAGGGAATGACCGGCTCTCAAAGCGCTGTGCTCAGTACAGGAA
GGATGGTACTGACTTTGGGAAATGGCGTGCTCTGCTGAAGACTGCTGACCAGTGTCCATCAAGCCTTGCTATCTAAGAAA
ATTCCAACACTCTGGCCCACTATGCCAGCATCTGTCAGCAGAATGGGCTGGGCCCTACTGTTGAACCAGAGGTAATTTCT
GATGGAGACCATGACCTGGAGCACTGCCAGTATGTTGCTGAGAAGGTTCTGGCTGCTGTGTGTAAGGTCCTGAATGACCA
TCATGTTTACCTGGAGGGCACCCTGATAAAGCAAACATGGTGACTGCTGAGCATGCCTGCACCAAGAAGTATACTCCAGA
ACAAGTGGCCATGGCCACTGTCACAGCTCTTCATCATACCATTCCTGCAGCTGTGCCTGGCTTCTGCTTTTTTGTCTAGT
GGCATGAGTGAAGAGGATGGTACTCTCAACTTCAATCCTATCAACCTTTGCCCTCTACCAAAGCCCTGGAAACTTAGTTT
CTCTTATGGACCTGCCCTGCAGTCCAGTGCACCGGATGCCTGGAGTGGCAAAGCTGCAAACAAGACAGCCACTCAGGAGG
CTTTTATGAACTGGGTTGTGGCTAACTGCCAGGCAGTCAGTGGACAGTATGCTCACACTGACTCTGGAGCTGCTTTCATC
CAGTCACTC

Alignment

ORF - retro_tbel_3244 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.78 %
• Parental protein coverage: 68.07 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  APLAGTNQETTIQGLDGLSERCAQYKKDGVDFGKWRAVLKIADQCPSSLAIQENANALARYASICQQNGL
          .PLA.TNQETTIQG.D.LS.RCAQY.KDG.DFGKWRA.LK.ADQCPSSLAI.EN.N.LA.YASICQQNGL
Retrocopy SPLAETNQETTIQGNDRLSKRCAQYRKDGTDFGKWRALLKTADQCPSSLAI*ENSNTLAHYASICQQNGL

Parental  VPIVEPEVIPDGDHDLEHCQYVTEKVLAAVYKALNDHHVFLEGTLL-KPNMVTAGHACTKKYTPEQVALA
          .P.VEPEVI.DGDHDLEHCQYV.EKVLAAV.K.LNDHHV.LEGTL..K.NMVTA.HACTKKYTPEQVA.A
Retrocopy GPTVEPEVISDGDHDLEHCQYVAEKVLAAVCKVLNDHHVYLEGTLI<KANMVTAEHACTKKYTPEQVAMA

Parental  TVTALHRTVPAAVPGIC-FLSGGMSEEDATLNLNAINLCPLPKPWKLSFSYGRALQASALAAWGGKPANK
          TVTALH.T.PAAVPG.C.FLS.GMSEED.TLN.N.INLCPLPKPWKLSFSYG.ALQ.SA..AW.GK.ANK
Retrocopy TVTALHHTIPAAVPGFC>FLSSGMSEEDGTLNFNPINLCPLPKPWKLSFSYGPALQSSAPDAWSGKAANK

Parental  KATQEAFMKRAVANCQAAKGQYVHSGSSGASTQSL
          .ATQEAFM...VANCQA..GQY.H..S..A..QSL
Retrocopy TATQEAFMNWVVANCQAVSGQYAHTDSGAAFIQSL

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_3244 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_3244 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 4 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000014816	5 retrocopies	retro_dnov_1625, retro_dnov_1631, retro_dnov_2028, retro_dnov_2152, retro_dnov_547,
Echinops telfairi	ENSETEG00000017395	2 retrocopies	retro_etel_2089, retro_etel_945,
Monodelphis domestica	ENSMODG00000014418	2 retrocopies	retro_mdom_1752, retro_mdom_393,
Tupaia belangeri	ENSTBEG00000009298	1 retrocopy	retro_tbel_3244 ,