RetrogeneDB ID:

retro_tbel_4413

Retrocopy
location
Organism:Treeshrew (Tupaia belangeri)
Coordinates:scaffold_81582:9494..10228(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSTBEG00000003474
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_tbel_4413
CTGAATATTTCCTTCCCAGCCACGGGCTGCCAGAAACTCATTGAAGTGGACGATGAACGCAAACTTCGTACTTTTTATGA
GAAGCGTATGGCCACAGAAGTTGCTGCTGACGCTTTGGGCGAAGAATGGAAGGGTTATGTAGTCCGAATCAGTGGTGGAA
ACGACAAACAAGGTTTCCCCATGAAGCAGGGCGTCTTGACCCACGGCCGTGTCCGCCTTCTACTGAGTAAGGGACATTCC
TGTTACAGACCAAGGAGAACTGGAGAAAGAAAGCGCAAATCTGTTCGGGGTTGCATTGTGGATGCCAACCTGAGCATTCT
CAACTTGGTTATTGTTAAAAAAGGAGAGAAGGATATTCCAGGACTGACTGATACTACCGTGCCTCGTCGCCTGGGGCCTA
AGAGAGCTAGCAGAATCCGAAAACTTTTCAATCTCTCTAAAGAAGACGATGTCCACCAATATGTTGTAAGAAAGCCCTTA
AATAAAGAAGGTAAGAAACCTAGGACCAAAGCACCCAAGATTCAGCGTCTTGTGACTCCCCGTGTCCTGCAACACAAACG
CCGGCGTATTGCCCTCAAGAAACAACGTACTAAGAAAAATAAGGAAGAGGCAGCAGAATATGCTAAACTTTTGGCCAAGA
GACGAAGGAGGCTAAAGAAAAACGCCAAGAACAGATTCCAAGAGACGCAGGCTGAACCTCTCTGAGAGCTTCCACTTCTA
AGTCTGAATCCAGT

ORF - retro_tbel_4413 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 89.92 %
Parental protein coverage: 99.18 %
Number of stop codons detected: 0
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalLNISFPATGCQKLIEVDDERKLRTFYEKRMATEVAADALGEEWKGYVVRISGGNDKQGFPMKQGVLTHGR
LNISFPATGCQKLIEVDDERKLRTFYEKRMATEVAADALGEEWKGYVVRISGGNDKQGFPMKQGVLTHGR
RetrocopyLNISFPATGCQKLIEVDDERKLRTFYEKRMATEVAADALGEEWKGYVVRISGGNDKQGFPMKQGVLTHGR
ParentalVRLLLSKGHSCYRPRRTGE-KRKSVRGCTVDANLSILNSVIVKK-EKNIPGLTDTTVPRHLGPKRASRIP
VRLLLSKGHSCYRPRRTGE.KRKSVRGC.VDANLSILN.VIVKK.EK.IPGLTDTTVPR.LGPKRASRI.
RetrocopyVRLLLSKGHSCYRPRRTGERKRKSVRGCIVDANLSILNLVIVKKGEKDIPGLTDTTVPRRLGPKRASRIR
ParentalKLFNLSKEDDVRQYVVRKPLNKEGKNPRTKAPKIQCLVTPCVLQHKRWHTALKKQRTKKNKEEAADYAQL
KLFNLSKEDDV.QYVVRKPLNKEGK.PRTKAPKIQ.LVTP.VLQHKR...ALKKQRTKKNKEEAA.YA.L
RetrocopyKLFNLSKEDDVHQYVVRKPLNKEGKKPRTKAPKIQRLVTPRVLQHKRRRIALKKQRTKKNKEEAAEYAKL
ParentalLAKR-MKEAKEKSQEQ-TVKRRRL-SPLRASTSKSESS
LAKR..KEAKEK.QEQ...KRRRL...LRASTSKSESS
RetrocopyLAKR<TKEAKEKRQEQ<DSKRRRL>TSLRASTSKSESS

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.
1 EST(s) were mapped to retro_tbel_4413 retrocopy
EST ID Start End Identity Match Mis-match Score
CF526854 9565 9883 99.1 314 3 310
Tupaia belangeri was not studied using FANTOM5 data.
retro_tbel_4413 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 9 parental genes, and 51 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000176341 retrocopy
Cavia porcellus ENSCPOG000000037504 retrocopies
Dasypus novemcinctus ENSDNOG000000072411 retrocopy
Ficedula albicollis ENSFALG000000030781 retrocopy
Loxodonta africana ENSLAFG000000107664 retrocopies
Monodelphis domestica ENSMODG000000040951 retrocopy
Ochotona princeps ENSOPRG000000122905 retrocopies
Sarcophilus harrisii ENSSHAG000000054861 retrocopy
Tupaia belangeri ENSTBEG00000003474 33 retrocopies



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