RetrogeneDB ID:

retro_tbel_2873

Retrocopy
location
Organism:Treeshrew (Tupaia belangeri)
Coordinates:scaffold_121902:60594..61058(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:GAPDHS
Ensembl ID:ENSTBEG00000008617
Aliases:None
Description:glyceraldehyde-3-phosphate dehydrogenase, spermatogenic [Source:HGNC Symbol;Acc:24864]


Retrocopy-Parental alignment summary:






>retro_tbel_2873
GTGGAGGGACTCACTGCCACCCAGAAGACTGTGGACGGCCCCTCAGGGAAGCTGTGGAATGATGGCTTGGGGTTACCCAG
AATGTCATCCCAGCATCAAGTGGTGCTGTCAAGGCTGTGAGCAAGGTCATCCTGGAGCTGGAGGGGAAGCTCACTGGCAT
GATATTCTGTGTCCTCATCCCCAGTGTATCAGTCGTGGACTTGACCTGCTGCCTAGAGAAAGCTGCCAAATATGATGACA
TCAAGAAGATGGTGAAGCAGGCTTTGTGGGGCCCCCTGAAGGGCATCCTGGGCTACACCAAGAACCAGGTTGTCTCCTGC
AACTTCAACCCCCACTCCACCTTTGATGCTGGGGCTGGCATCACCCTCAATAACCACTTTGTCAAGCTCATTTCCTGTTT
TGACAATAAATTTAGTTACAGCAATAGGGTGGTAGACCTCATCGTCCACATGGCCTCCAAGGAG

ORF - retro_tbel_2873 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 60.38 %
Parental protein coverage: 61.24 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalVHSYTATQKTVDGPSKKAWRDGRG-AHQNIIPASTGAASAVGKVIPELKGKLTGMAFRVPTPDVSVVDLT
V...TATQKTVDGPS.K.W.DG.G...QN.IPAS.GA..AV.KVI.EL.GKLTGM.F.V..P.VSVVDLT
RetrocopyVEGLTATQKTVDGPSGKLWNDGLG<VTQNVIPASSGAVKAVSKVILELEGKLTGMIFCVLIPSVSVVDLT
ParentalCRLAQPTPYSAIKEAVKAAAKGPLAGILAYTEDQVVSTDFVGDTHSSIFDAKAGIALNDNFVKVISWYDN
C.L.....Y..IK..VK.A..GPL.GIL.YT..QVVS..F....HS..FDA.AGI.LN..FVK.IS..DN
RetrocopyCCLEKAAKYDDIKKMVKQALWGPLKGILGYTKNQVVSCNF--NPHST-FDAGAGITLNNHFVKLISCFDN
ParentalEYGYSHRVVDLIRYMFSRD
...YS.RVVDLI..M.S..
RetrocopyKFSYSNRVVDLIVHMASKE

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Tupaia belangeri was not studied using RNA-Seq expression data.
Tupaia belangeri was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_tbel_2873 retrocopy.
Tupaia belangeri was not studied using FANTOM5 data.
retro_tbel_2873 was not experimentally validated.

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 6 parental genes, and 72 retrocopies.

Species Parental gene accession Retrocopies number
Mus musculus ENSMUSG000000610992 retrocopies
Otolemur garnettii ENSOGAG0000000949125 retrocopies
Petromyzon marinus ENSPMAG000000093211 retrocopy
Pan troglodytes ENSPTRG000000108481 retrocopy
Tupaia belangeri ENSTBEG0000000151027 retrocopies
Tupaia belangeri ENSTBEG00000008617 16 retrocopies



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