RetrogeneDB ID:

retro_mdom_1326

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:4:14459818..14460718(-)
Located in intron of:ENSMODG00000021067
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSMODG00000007551
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mdom_1326
ATGGAGTCTGTCACTGCCGAGGAGCTCCCTGAAGAGGAAGAGGAAGAAGAGCAGGAGCAGCTATTGAAGCGGCATCGGAA
GGAGAAGAAGGAGCTGCAGGCCAAAATTCAAAGCATGAAAAATGCGGTTCCGAAGAATGACAAAAAGAGGAGGAAACAAT
TGATTGAGGATGTTGCTAAATTGGAAGGAGAAATGGAACAGAAACACAGAGAAGAACTGGAGCATTTGAAGCTTACTTCA
CATGCAAAGAATAAGATAGACTCTGTTGTCGTTAACATTGCATGTTTGGATATTGAGAATCAGCAACCTCGGATATCAAA
AGCACAGAAGAGGCGGGAGAAGAAAGCTGCATTGGAGAAGGAAAGAGAAGAAAGGATAGCAGAAGCAGAAATTGAAAACT
TATCTGGAGCCAGACATCTAGAAAATCAGAAACTTGCACGTATTTTGGCAGCTAGACATTTAGAAATTAAACAGATTCCA
TCAGATGGCCACTGTATGTACCGAGCTATTGAAGACCAGCTAAAGGAACAGGAATGCCTCCTGACTGTAGCCACCTTAAG
AAGTCAGACCGCTGAATATATGCAAAACCATGTGGAGGACTTCCTGCCATTCTTAACAAATCCTAATACAGGAGATATAT
ATACTCCAGAAGAGTTTGGAAAGTACTGTGATGATATTGTAAACACAGCTGCATGGGGAGGTCAACTTGAGTTAAGGGCT
CTGTCTCATATTTTGCAAACACCAATAGAAGTAATACAAGCAGACTCTCCTCCAATTGTAGTTGGTGAAGAATATTCAAA
CAAACCTTTAACACTCATATATATGAGACATGCCTATGGCTTAGGAGAGCATTATAATTCTGTGAAACAACTGATGGACT
CAGCTACTGAAAATGGTAGC

ORF - retro_mdom_1326 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 100. %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMESVTAEELPEEEEEEEQEQLLKRHRKEKKELQAKIQSMKNAVPKNDKKRRKQLIEDVAKLEGEMEQKHR
MESVTAEELPEEEEEEEQEQLLKRHRKEKKELQAKIQSMKNAVPKNDKKRRKQLIEDVAKLEGEMEQKHR
RetrocopyMESVTAEELPEEEEEEEQEQLLKRHRKEKKELQAKIQSMKNAVPKNDKKRRKQLIEDVAKLEGEMEQKHR
ParentalEELEHLKLTSHAKNKIDSVVVNIACLDIENQQPRISKAQKRREKKAALEKEREERIAEAEIENLSGARHL
EELEHLKLTSHAKNKIDSVVVNIACLDIENQQPRISKAQKRREKKAALEKEREERIAEAEIENLSGARHL
RetrocopyEELEHLKLTSHAKNKIDSVVVNIACLDIENQQPRISKAQKRREKKAALEKEREERIAEAEIENLSGARHL
ParentalENQKLARILAARHLEIKQIPSDGHCMYRAIEDQLKEQECLLTVATLRSQTAEYMQNHVEDFLPFLTNPNT
ENQKLARILAARHLEIKQIPSDGHCMYRAIEDQLKEQECLLTVATLRSQTAEYMQNHVEDFLPFLTNPNT
RetrocopyENQKLARILAARHLEIKQIPSDGHCMYRAIEDQLKEQECLLTVATLRSQTAEYMQNHVEDFLPFLTNPNT
ParentalGDIYTPEEFGKYCDDIVNTAAWGGQLELRALSHILQTPIEVIQADSPPIVVGEEYSNKPLTLIYMRHAYG
GDIYTPEEFGKYCDDIVNTAAWGGQLELRALSHILQTPIEVIQADSPPIVVGEEYSNKPLTLIYMRHAYG
RetrocopyGDIYTPEEFGKYCDDIVNTAAWGGQLELRALSHILQTPIEVIQADSPPIVVGEEYSNKPLTLIYMRHAYG
ParentalLGEHYNSVKQLMDSATENGS
LGEHYNSVKQLMDSATENGS
RetrocopyLGEHYNSVKQLMDSATENGS

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






RNA-Seq - click to see more details

(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 0 .00 RPM
SRP007412_cerebellum 0 .00 RPM 0 .00 RPM
SRP007412_heart 0 .00 RPM 0 .00 RPM
SRP007412_kidney 0 .00 RPM 0 .00 RPM
SRP007412_liver 0 .00 RPM 0 .00 RPM
SRP007412_testis 0 .00 RPM 0 .00 RPM

ChIP-Seq - click to see more details

Monodelphis domestica was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_mdom_1326 retrocopy.

TSS - click to see more details

Monodelphis domestica was not studied using FANTOM5 data.

Lab - click to see more details

retro_mdom_1326 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 22 parental genes, and 25 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000069711 retrocopy
retro_amel_74,
Bos taurus ENSBTAG000000034812 retrocopies
retro_btau_236, retro_btau_969,
Choloepus hoffmanni ENSCHOG000000042662 retrocopies
retro_chof_1969, retro_chof_2069,
Cavia porcellus ENSCPOG000000135951 retrocopy
retro_cpor_103,
Equus caballus ENSECAG000000182051 retrocopy
retro_ecab_44,
Felis catus ENSFCAG000000299001 retrocopy
retro_fcat_124,
Loxodonta africana ENSLAFG000000110021 retrocopy
retro_lafr_16,
Microcebus murinus ENSMICG000000122781 retrocopy
retro_mmur_1222,
Myotis lucifugus ENSMLUG000000169541 retrocopy
retro_mluc_1226,
Macaca mulatta ENSMMUG000000133961 retrocopy
retro_mmul_350,
Monodelphis domestica ENSMODG00000007551 2 retrocopies
retro_mdom_119, retro_mdom_1326 ,
Mustela putorius furoENSMPUG000000091941 retrocopy
retro_mputfur_51,
Mus musculus ENSMUSG000000405501 retrocopy
retro_mmus_2456,
Nomascus leucogenys ENSNLEG000000024201 retrocopy
retro_nleu_2365,
Oryctolagus cuniculus ENSOCUG000000002181 retrocopy
retro_ocun_29,
Otolemur garnettii ENSOGAG000000112981 retrocopy
retro_ogar_228,
Ochotona princeps ENSOPRG000000076551 retrocopy
retro_opri_413,
Pan troglodytes ENSPTRG000000204131 retrocopy
retro_ptro_3120,
Sus scrofa ENSSSCG000000061201 retrocopy
retro_sscr_52,
Ictidomys tridecemlineatus ENSSTOG000000029541 retrocopy
retro_itri_9,
Tupaia belangeri ENSTBEG000000170701 retrocopy
retro_tbel_304,
Tursiops truncatus ENSTTRG000000043451 retrocopy
retro_ttru_1207,


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