RetrogeneDB ID:

retro_dord_629

Retrocopy
location
Organism:Kangaroo rat (Dipodomys ordii)
Coordinates:scaffold_42861:10379..10792(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Cbx3
Ensembl ID:ENSDORG00000005487
Aliases:None
Description:chromobox 3 [Source:MGI Symbol;Acc:MGI:108515]


Retrocopy-Parental alignment summary:






>retro_dord_629
CATTTCCTGAAGTAGAAGGGATTTACTGATGCTGATAATCCTTGGAAACCTGAAGAACATTTAGATTGTACAGAATTAAT
TGAAGCATTTCTCAATTCTCAAAAAGCTGGTTAAAACAAAAGGATGGTACAAAAAGAAAATCTTTATCAGACAGTGAATC
TGATGATAGCAAATCAAAGAAGCAAAGAGATACTGCCAACAAGCCAAGGGGCTTTGCCAGGGGTCTAGATCCTGAACAAA
TAGTTGGTGCCACAGACAGCACTGGAGAATTGATGTTTCTCATGAAATGGAAAGATTCAAATGAAGCTAACTTGGTGTTG
ACAAAAGAGGCGAATATGAAATGTCCTTAGATTGTAAATGCTTTATATGAAGACAGACTAACTTGGCATTCTTGTCCAGA
AGATGAAGCTCAA

ORF - retro_dord_629 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.01 %
Parental protein coverage: 74.86 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalYFLKWKGFTDADNTWEPEENLDCPELIEAFLNSQKAG-KEKDGTKR-KSLSDSESDDSKSKKKRDTADKP
.FLK.KGFTDADN.W.PEE.LDC.ELIEAFLNSQKAG.K.K...K..KSLSDSESDDSKSKK.RDTA.KP
RetrocopyHFLK*KGFTDADNPWKPEEHLDCTELIEAFLNSQKAG>KTKGWYKK>KSLSDSESDDSKSKKQRDTANKP
ParentalRGFARGLDPERIIGATDSSGELMFLMKWKDSDEADLVLAKEANMKCPQIVIAFYEERLTWHSCPEDEAQ
RGFARGLDPE.I.GATDS.GELMFLMKWKDS.EA.LVL.KEANMKCP.IV.A.YE.RLTWHSCPEDEAQ
RetrocopyRGFARGLDPEQIVGATDSTGELMFLMKWKDSNEANLVLTKEANMKCP*IVNALYEDRLTWHSCPEDEAQ

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






RNA-Seq - click to see more details

Dipodomys ordii was not studied using RNA-Seq expression data.