RetrogeneDB ID:

retro_mdom_568

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:1:328020550..328021144(-)
Located in intron of:ENSMODG00000012586
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:FAM81A
Ensembl ID:ENSMODG00000008897
Aliases:None
Description:family with sequence similarity 81, member A [Source:HGNC Symbol;Acc:28379]


Retrocopy-Parental alignment summary:






>retro_mdom_568
ATTTTGGAAACTAAAATCAAAGATGCAGAAGGACAGATTTCTCAATTTTTAAGCAGAGTTGACCTGCCATTATCAGAGCA
AAGCACAAAGCTGAAAATGACCCACAGAGATAGCAACCATCAGCTTCACCCTTTGGACATTAAATTTAAAGGTACAGTAG
AAGAACTTAGTAGCCAAATTTTGTCTGCACGGAATTGGTTGCAACAGGAACAAAAACAGATAGAAAAAGAACTTTTATAG
AAGATTGATCAACTTGCATTGATTGTTAAGGAAAATAGTGAAATTAGTGAAAGGACAATAGAGAAGTTCAGTCAGATGTC
AGCAAAGCTTGATAAAATAGAAGAGATACAAAAGAAAAATGTGGACGCACAGAGGCCAAAATCTGATGATGAGAAGATGA
ATGTCCGAATCAGCAAAATTGAGTTGCAGATGAATGAAGAGATGAAAGAAATGAAAGCAGAAGTTAATGCTGGATTTACA
GCCATCTATGAAAGCATAGGATCACTCAGACAAGTTCTTGAAGTCAAAATGAAAATTGATAAAGGCCAGCTACTGAAACA
AATTCATCAGCTAAGGAAGCAAGAGACTCCCATG

ORF - retro_mdom_568 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 93.47 %
Parental protein coverage: 52.79 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalILETKIKDAEGQISQLLSRVDLSLSEQSTKLKMTHRDSNHQLHLLDIKFKGTVEELSSQILSARNWLQQE
ILETKIKDAEGQISQ.LSRVDL.LSEQSTKLKMTHRDSNHQLH.LDIKFKGTVEELSSQILSARNWLQQE
RetrocopyILETKIKDAEGQISQFLSRVDLPLSEQSTKLKMTHRDSNHQLHPLDIKFKGTVEELSSQILSARNWLQQE
ParentalQERIEKELLQKIDQLALVVKENSEISERTIEKKFSQMSAKLDKIEEIQKKNMDAQRPKSDDEKMNVRISK
Q..IEKELL.KIDQLAL.VKENSEISERTIE.KFSQMSAKLDKIEEIQKKN.DAQRPKSDDEKMNVRISK
RetrocopyQKQIEKELL*KIDQLALIVKENSEISERTIE-KFSQMSAKLDKIEEIQKKNVDAQRPKSDDEKMNVRISK
ParentalIELQMNEEMKEMKAEVNAGFAAIYESIGSLRQVLEAKMKIDKDQLLKQIHQLRKQEAPM
IELQMNEEMKEMKAEVNAGF.AIYESIGSLRQVLE.KMKIDK.QLLKQIHQLRKQE.PM
RetrocopyIELQMNEEMKEMKAEVNAGFTAIYESIGSLRQVLEVKMKIDKGQLLKQIHQLRKQETPM

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






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP007412_brain 0 .00 RPM 95 .24 RPM
SRP007412_cerebellum 0 .00 RPM 0 .98 RPM
SRP007412_heart 0 .00 RPM 3 .19 RPM
SRP007412_kidney 0 .00 RPM 27 .65 RPM
SRP007412_liver 0 .00 RPM 0 .50 RPM
SRP007412_testis 0 .00 RPM 2 .95 RPM
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_568 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_568 was not experimentally validated.

Retrocopy orthology:
Monodelphis domestica 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 1 parental gene, and 2 retrocopies.

Species Parental gene accession Retrocopies number
Monodelphis domestica ENSMODG00000008897 2 retrocopies
retro_mdom_1537, retro_mdom_568 ,



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