RetrogeneDB ID:

retro_itri_76

Retrocopy
location
Organism:Squirrel (Ictidomys tridecemlineatus)
Coordinates:JH393572.1:155786..156167(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSSTOG00000024910
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSSTOG00000010902
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_itri_76
ATGGCTCCCGCAAAGAAGGGTGGCGAGAAGAAGGGCCGTTCTGCCATCAATGAGATAGTGACCCGAGAATACATCATCAA
CATTCACAAGCGCATCCATGGAGTGGGCTCCAAGAAGCGTGCTCCTCGGGCACTCAAAGAGATCCGGAAATTTGTCATGA
AGGAGATGGGAACTCCAGATGAGCGCATTGATACCAGGCTCAACAAAGCTGTCTGGGCCAAAGGAATAAGGAATGTCCCA
TATCGTATTCGTGTGCAATTATCCAGAAAACATAACGAGGATGAAAATTCACCAAACAAGCTCTGTACTTTAGTAACTAT
GTCCCCATTACCACGTTCAAAAATCTACAGACAGTCAATATGGATGAGAACTAACTGCTGA

ORF - retro_itri_76 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 86.09 %
Parental protein coverage: 92. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAPAKKGGEKKKGRSAINEVVTREYTINIHKRIHGVGFKKRAPRALKEIRKFAMKEMGTPDVRIDTRLNK
MAPAKKGGEKK.GRSAINE.VTREY.INIHKRIHGVG.KKRAPRALKEIRKF.MKEMGTPD.RIDTRLNK
RetrocopyMAPAKKGGEKK-GRSAINEIVTREYIINIHKRIHGVGSKKRAPRALKEIRKFVMKEMGTPDERIDTRLNK
ParentalAVWAKGIRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFK
AVWAKGIRNVPYRIRV.LSRK.NEDE.SPNKL.TLVT..P....K
RetrocopyAVWAKGIRNVPYRIRVQLSRKHNEDENSPNKLCTLVTMSPLPRSK

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






Ictidomys tridecemlineatus was not studied using RNA-Seq expression data.
Ictidomys tridecemlineatus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_itri_76 retrocopy.
Ictidomys tridecemlineatus was not studied using FANTOM5 data.
retro_itri_76 was not experimentally validated.

Retrocopy orthology:
Ictidomys tridecemlineatus 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 10 parental genes, and 105 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000079141 retrocopy
Bos taurus ENSBTAG000000197019 retrocopies
Latimeria chalumnae ENSLACG000000136031 retrocopy
Macropus eugenii ENSMEUG000000009638 retrocopies
Myotis lucifugus ENSMLUG0000000250721 retrocopies
Monodelphis domestica ENSMODG000000017045 retrocopies
Oryctolagus cuniculus ENSOCUG000000023929 retrocopies
Sarcophilus harrisii ENSSHAG000000117063 retrocopies
Ictidomys tridecemlineatus ENSSTOG00000010902 15 retrocopies
Tarsius syrichta ENSTSYG0000000542733 retrocopies



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