RetrogeneDB ID:

retro_lafr_1034

Retrocopy
location
Organism:Elephant (Loxodonta africana)
Coordinates:scaffold_6:66192262..66192490(-)
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:ENSLAFG00000010459
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_lafr_1034
ATGGTGCCATCCACATTGCTGCACTGCTTCTCCTGGTTGCTGGCCCTGGCCTGGCTCTCGAGCGGTCTTTCAGCTCGGTC
AAAGTTCTACATTTAAGAGCCGCCGAATAGCAAGCCTGATTGGCTGAAAGTTGGACTCACCTTGGGCACCACAGTCTTCC
TCTGGGTCTATCTCATCAAACAACATAATGAAGATGTTTAAGAATATAAAAGAAAAAATGGGTTGGAA

ORF - retro_lafr_1034 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.89 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAPSTLLRRFSRLLAPAWLPSGLSARSKFYVREPPNSKPNWLKVGLTLGTTAFLWAYLIKQHNEDVLEYK
M.PSTLL..FS.LLA.AWL.SGLSARSKFY..EPPNSKP.WLKVGLTLGTT.FLW.YLIKQHNEDV.EYK
RetrocopyMVPSTLLHCFSWLLALAWLSSGLSARSKFYI*EPPNSKPDWLKVGLTLGTTVFLWVYLIKQHNEDV*EYK
ParentalRRNGLE
R.NGLE
RetrocopyRKNGLE

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






Loxodonta africana was not studied using RNA-Seq expression data.
Loxodonta africana was not studied using ChIP-Seq data.
Loxodonta africana was not studied using EST data.
Loxodonta africana was not studied using FANTOM5 data.
retro_lafr_1034 was not experimentally validated.

Retrocopy orthology:
Loxodonta africana 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 11 parental genes, and 31 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000110402 retrocopies
Bos taurus ENSBTAG000000395822 retrocopies
Dasypus novemcinctus ENSDNOG000000156391 retrocopy
Echinops telfairi ENSETEG0000000480011 retrocopies
Felis catus ENSFCAG000000085481 retrocopy
Loxodonta africana ENSLAFG00000010459 5 retrocopies
Microcebus murinus ENSMICG000000068361 retrocopy
Myotis lucifugus ENSMLUG000000090822 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000235903 retrocopies
Tursiops truncatus ENSTTRG000000011072 retrocopies
Vicugna pacos ENSVPAG000000077031 retrocopy



Copyright © RetrogeneDB 2014-2017