RetrogeneDB ID:

retro_dord_596

Retrocopy
location
Organism:Kangaroo rat (Dipodomys ordii)
Coordinates:scaffold_3808:79644..80051(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Lsm12
Ensembl ID:ENSDORG00000016381
Aliases:None
Description:LSM12 homolog (S. cerevisiae) [Source:MGI Symbol;Acc:MGI:1919592]


Retrocopy-Parental alignment summary:






>retro_dord_596
TCCAGTGGAAAGCCCGACCACGCAGACATCTTGCTCATAAACTTACAGCATGTTTCAGAAGTGGAAATAATGGATGACTG
AACAGAAACCCCTCCTCCCCTAGCTTCACTCAATGTTAGTAAGCTTGCCAGCAAAGCGTGGACAGAGAAGAAGGAGAAGC
TGAGCCAGACCTGTGCGATCAGCGCTGGTGTCTTCCTAGAGGGCCAGCAGTAATTCCAGACCATTCACAAGACCATTAAA
GACTGTAAATGGCAAGAAAAAAAAACATTGAGGTCATGGAAGAAATTGTAATTACACCTCCATATCAAGTGGAAAACGGT
AAAGGCAGAGAAGGGAGTGCACTGAGCCATGTATGCAAGATAGTTGAAAAACATTGTAGAGATGTGGAAAGCCAATAGAT
ACTGCAG

ORF - retro_dord_596 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.37 %
Parental protein coverage: 88.24 %
Number of stop codons detected: 3
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalSSGKPNHADILLINLQYVSEVEIINDRTETPPPLASLNVSKLASKARTEKEEKLSQAYAISAGVSLEGQQ
SSGKP.HADILLINLQ.VSEVEI..D.TETPPPLASLNVSKLASKA.TEK.EKLSQ..AISAGV.LEGQQ
RetrocopySSGKPDHADILLINLQHVSEVEIMDD*TETPPPLASLNVSKLASKAWTEKKEKLSQTCAISAGVFLEGQQ
ParentalLFQTIHKTIKDCKWQ-EKNIVVMEEVVITPP-YQVENCKGKEGSALSHVRKIVEKHFRDVESQKILQ
.FQTIHKTIKDCKWQ.........E.....P.YQVEN.KG.EGSALSHV.KIVEKH.RDVESQ.ILQ
Retrocopy*FQTIHKTIKDCKWQ<XXXXIEVMEEIVITPPYQVENGKGREGSALSHVCKIVEKHCRDVESQ*ILQ

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.