RetrogeneDB ID:

retro_itri_640

Retrocopy
location
Organism:Squirrel (Ictidomys tridecemlineatus)
Coordinates:JH393308.1:3029785..3030184(-)
Located in intron of:ENSSTOG00000010701
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:FABP3
Ensembl ID:ENSSTOG00000003842
Aliases:None
Description:Fatty acid-binding protein, heart [Source:UniProtKB/Swiss-Prot;Acc:Q99P61]


Retrocopy-Parental alignment summary:






>retro_itri_640
ATGGTGGACGCCTTCGTGGGCACCTGGAAACTAGTGGACAGCAAGAATTTCGATGACTACATGAAGTCACTTGATGTGGG
CTTTGCTACCAGGCAAGTGGCCAGCATGACCAAGCCCACTACAATCATTGAAAAGAATGGGGACACCATCATCTTAAAAA
CACAGAGCACCTTCAAGAATTTGGAGATCGGTTTTTAACTGGGGGTAGAGTTTGATGAGACTACAGCAGATGACAGGAAG
GTCAAGTCCACTGTGATGTTGGATGGAGGAAAACTTGTCCATGTGCAGAAGTGGGATGGGCAAGAGACTACACTTGTGCG
GGAGCTAAATAATGGGAAACTCATCTTGACACTCACCCATGGCAGTGTAGTGTGCACTTGCACTTATGAGAAAGAGGCA

ORF - retro_itri_640 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 93.98 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMVDAFVGTWKLVDSKNFDDYMKSLGVGFATRQVASMTKPTTIIEKNGDTIILKTQSTFKNTEISFQLGKE
MVDAFVGTWKLVDSKNFDDYMKSL.VGFATRQVASMTKPTTIIEKNGDTIILKTQSTFKN.EI.F.LG.E
RetrocopyMVDAFVGTWKLVDSKNFDDYMKSLDVGFATRQVASMTKPTTIIEKNGDTIILKTQSTFKNLEIGF*LGVE
ParentalFDETTADDRKVKSTVTLDGGKLVHVQKWDGQETTLVRELNDGKLILTLTHGSVVCTRTYEKEA
FDETTADDRKVKSTV.LDGGKLVHVQKWDGQETTLVRELN.GKLILTLTHGSVVCT.TYEKEA
RetrocopyFDETTADDRKVKSTVMLDGGKLVHVQKWDGQETTLVRELNNGKLILTLTHGSVVCTCTYEKEA

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_640 retrocopy.
Ictidomys tridecemlineatus was not studied using FANTOM5 data.
retro_itri_640 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 18 parental genes, and 38 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000168192 retrocopies
Danio rerio ENSDARG000000232901 retrocopy
Dasypus novemcinctus ENSDNOG000000005112 retrocopies
Equus caballus ENSECAG000000248521 retrocopy
Homo sapiens ENSG000001217691 retrocopy
Gorilla gorilla ENSGGOG000000144321 retrocopy
Macropus eugenii ENSMEUG000000125016 retrocopies
Microcebus murinus ENSMICG000000093594 retrocopies
Myotis lucifugus ENSMLUG000000136092 retrocopies
Mus musculus ENSMUSG000000287733 retrocopies
Nomascus leucogenys ENSNLEG000000015861 retrocopy
Otolemur garnettii ENSOGAG000000137574 retrocopies
Pongo abelii ENSPPYG000000016161 retrocopy
Pan troglodytes ENSPTRG000000004571 retrocopy
Rattus norvegicus ENSRNOG000000128791 retrocopy
Ictidomys tridecemlineatus ENSSTOG00000003842 3 retrocopies
retro_itri_1544, retro_itri_640 , retro_itri_641,
Ictidomys tridecemlineatus ENSSTOG000000056731 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000078773 retrocopies



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