RetrogeneDB ID:

retro_dord_711

Retrocopy
location
Organism:Kangaroo rat (Dipodomys ordii)
Coordinates:scaffold_5965:52515..53224(-)
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:ENSDORG00000007375
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_dord_711
GCTTGTGGAGGCAAGGCGGAAGACAAGGAATGGATCCCTGTCACCAAACTGGGCTGCCTGGTTAAGGACATGAAGACCAA
GTCTCTGGAGGAGATCTATCTTTCCTCCCCACCCATCAAGGAGATGACTGAATTCTTCCTGGGGGTGTCACTCAAAGATG
AGGTGTTGAAGATTATGCCCATGCAGAAGCAAACTCGAGCTGGCCAGGGCACTGGGTTCAAGGCATTTGTAGCCATTGGC
AACTACAACGGCCATGCTGGTTTGGGTGTTACGTGCTCCCAGGAGGTGGCCACTGCATCTGGGGGGAGCTCTCATCTTGG
CCAAGCTCTCCATCATCCCTGTGCAGTGAGGCTACTGGGGGAACACCAAGCTTCACACTGTCACCTGAAAGGTGACAGGC
CGCTGGTGCTTCATCCTGGACCCCAGAGGCATTGGGGACACCCTAGTGTCAGCTCCTGTCCCCAAGAAGCTGTTGATGGT
GGCTGGTAACCGTGATAGCTCCACCTCAGCCAGGGACTGTACTGCTACCTTGGGGAACTTCGCCAAAGCCGCCTTTGATG
CCATCTCTAAGACCTACAGTTACCTGACCCCTGACCTCTGGAAAGAGACCGTATTCACCAAATCTCCTTATCAGGAATTC
ACTGACCATCTTGTGAAAACCCACCCCAGAGTCTCCCTGCAGAGGACCCAGGCTCCAGCTGTGGCTACA

ORF - retro_dord_711 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.87 %
Parental protein coverage: 82.94 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalARGGKAEDKEWIPVTKLGRLVKDMKIKSLEEIYLFSLPIKESEIIDFFLGASLKDEVLKIMPVQKQTRAG
A.GGKAEDKEWIPVTKLG.LVKDMK.KSLEEIYL.S.PIKE.....FFLG.SLKDEVLKIMP.QKQTRAG
RetrocopyACGGKAEDKEWIPVTKLGCLVKDMKTKSLEEIYLSSPPIKE--MTEFFLGVSLKDEVLKIMPMQKQTRAG
ParentalQRTRFKAFVAIGDYNGHVGLGVKCSKEVATA-IRGAIILAKLSIVPVRRGYWGNKIGKPHTVPCKVTGRC
Q.T.FKAFVAIG.YNGH.GLGV.CS.EVATA...GA.ILAKLSI.PV..GYWGN...K.HTV..KVTGR.
RetrocopyQGTGFKAFVAIGNYNGHAGLGVTCSQEVATA>LGGALILAKLSIIPVQ*GYWGNT--KLHTVT*KVTGRW
ParentalGSVLVRLIPAPRGTGIVSAPVPKKLLMMAGIDDCYTSARGCTATLGNFAKATFDAISKTYSYLTPDLWKE
...L....P...G...VSAPVPKKLLM.AG..D..TSAR.CTATLGNFAKA.FDAISKTYSYLTPDLWKE
RetrocopyCFIL---DPRGIGDTLVSAPVPKKLLMVAGNRDSSTSARDCTATLGNFAKAAFDAISKTYSYLTPDLWKE
ParentalTVFTKSPYQEFTDHLVKTHTRVSVQRTQAPAVAT
TVFTKSPYQEFTDHLVKTH.RVS.QRTQAPAVAT
RetrocopyTVFTKSPYQEFTDHLVKTHPRVSLQRTQAPAVAT

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






Dipodomys ordii was not studied using RNA-Seq expression data.
Dipodomys ordii was not studied using ChIP-Seq data.
Dipodomys ordii was not studied using EST data.
Dipodomys ordii was not studied using FANTOM5 data.
retro_dord_711 was not experimentally validated.

Retrocopy orthology:
Dipodomys ordii 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 7 parental genes, and 49 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000025491 retrocopy
Cavia porcellus ENSCPOG0000001165111 retrocopies
Dipodomys ordii ENSDORG00000007375 18 retrocopies
Monodelphis domestica ENSMODG000000160771 retrocopy
Mus musculus ENSMUSG000000445331 retrocopy
Rattus norvegicus ENSRNOG0000001417912 retrocopies
Sarcophilus harrisii ENSSHAG000000152135 retrocopies



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