RetrogeneDB ID:

retro_itri_699

Retrocopy
location
Organism:Squirrel (Ictidomys tridecemlineatus)
Coordinates:JH393312.1:4350194..4350387(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SMIM20
Ensembl ID:ENSSTOG00000004810
Aliases:None
Description:small integral membrane protein 20 [Source:HGNC Symbol;Acc:37260]


Retrocopy-Parental alignment summary:






>retro_itri_699
CAAAACCTGCACACCTTGCTCATTTTTGGCTGTTTGGTCTCCCTTTTGGGGCTGCCTTCTATTGCATCTACTTCTGCCTC
CTAATGAGGCTGGAGGAATACCAGAAGAAACAAGTCATAAATCAGGCCAATATTGTTCAATAAGATGTACAGCCACAGGG
TTAAGAATGTGGTCTTATCCATTCAGCAGGAAA

ORF - retro_itri_699 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 68.66 %
Parental protein coverage: 95.59 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalRNLRTALIFGGFVSLVG-AAFYPIYFRPLMRLEEYQKEQAINRAGIVQEDVQP-PGLKVWSDPFGRK
.NL.T.LIFG..VSL.G.AAFY.IYF..LMRLEEYQK.Q.IN.A.IVQ.DVQP..GL..WS.PF.RK
RetrocopyQNLHTLLIFGCLVSLLG<AAFYCIYFCLLMRLEEYQKKQVINQANIVQ*DVQP<TGLRMWSYPFSRK

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






RNA-Seq - click to see more details

Ictidomys tridecemlineatus was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Ictidomys tridecemlineatus was not studied using ChIP-Seq data.